QTL Analysis - rz transformed age of onset (rz.age) [ICI-Early vs PBS & ICI-Late] (corrected phenotype with outliers removed if any)

workflowr

• Summary
• Checks
• Past versions

Last updated: 2022-04-15

Checks: 5 2

Knit directory: Serreze-T1D_Workflow/

This reproducible R Markdown analysis was created with workflowr (version 1.6.2). The Checks tab describes the reproducibility checks that were applied when the results were created. The Past versions tab lists the development history.

---

R Markdown file: uncommitted changes

The R Markdown is untracked by Git. To know which version of the R Markdown file created these results, you’ll want to first commit it to the Git repo. If you’re still working on the analysis, you can ignore this warning. When you’re finished, you can run wflow_publish to commit the R Markdown file and build the HTML.

Environment: empty

Great job! The global environment was empty. Objects defined in the global environment can affect the analysis in your R Markdown file in unknown ways. For reproduciblity it’s best to always run the code in an empty environment.

Seed: set.seed(20220210)

The command set.seed(20220210) was run prior to running the code in the R Markdown file. Setting a seed ensures that any results that rely on randomness, e.g. subsampling or permutations, are reproducible.

Session information: recorded

Great job! Recording the operating system, R version, and package versions is critical for reproducibility.

Cache: none

Nice! There were no cached chunks for this analysis, so you can be confident that you successfully produced the results during this run.

File paths: absolute

Using absolute paths to the files within your workflowr project makes it difficult for you and others to run your code on a different machine. Change the absolute path(s) below to the suggested relative path(s) to make your code more reproducible.

absolute	relative
/Users/corneb/Documents/MyJax/CS/Projects/Serreze/qc/workflowr/Serreze-T1D_Workflow	.

Repository version: a8c2d1a

Great! You are using Git for version control. Tracking code development and connecting the code version to the results is critical for reproducibility.

The results in this page were generated with repository version a8c2d1a. See the Past versions tab to see a history of the changes made to the R Markdown and HTML files.

Note that you need to be careful to ensure that all relevant files for the analysis have been committed to Git prior to generating the results (you can use wflow_publish or wflow_git_commit). workflowr only checks the R Markdown file, but you know if there are other scripts or data files that it depends on. Below is the status of the Git repository when the results were generated:

Ignored files:
    Ignored:    .DS_Store
    Ignored:    analysis/.DS_Store
    Ignored:    data/.DS_Store

Untracked files:
    Untracked:  analysis/3.1_phenotype.qc_corrected_5.batches.Rmd.R
    Untracked:  analysis/3.1_phenotype.qc_corrected_5.batches_0.Rmd
    Untracked:  analysis/3.1_phenotype.qc_corrected_5.batches_52.Rmd
    Untracked:  analysis/3.1_phenotype.qc_corrected_5.batches_ici-early.vs.pbs.ici-late_mis.Rmd.R
    Untracked:  analysis/3.1_phenotype.qc_corrected_5.batches_mis.Rmd.R
    Untracked:  analysis/3.1_phenotype.qc_corrected_5.batches_mis_0.Rmd
    Untracked:  analysis/3.1_phenotype.qc_corrected_5.batches_mis_52.Rmd
    Untracked:  analysis/3.1_phenotype.qc_corrected_5.batches_mis_vo.Rmd
    Untracked:  analysis/3.1_phenotype.qc_corrected_5.batches_vo.Rmd
    Untracked:  analysis/3.1_phenotype.qc_corrected_ici-early.vs.pbs.ici-late_5.batches.Rmd
    Untracked:  analysis/3.1_phenotype.qc_corrected_ici-early.vs.pbs.ici-late_5.batches.Rmd.R
    Untracked:  analysis/3.1_phenotype.qc_corrected_ici-early.vs.pbs.ici-late_5.batches_mis.Rmd
    Untracked:  analysis/4.1.1_qtl.analysis_binary_ici-early.vs.pbs.ici-late_5.batches.Rmd
    Untracked:  analysis/4.1.1_qtl.analysis_binary_ici-early.vs.pbs.ici-late_5.batches.Rmd.R
    Untracked:  analysis/4.1.1_qtl.analysis_binary_ici-early.vs.pbs.ici-late_5.batches_mis.Rmd
    Untracked:  analysis/4.1.1_qtl.analysis_binary_ici-early.vs.pbs.ici-late_5.batches_mis.Rmd.R
    Untracked:  analysis/4.1.1_qtl.analysis_binary_ici-early.vs.pbs.ici-late_snpsqc_5.batches.Rmd
    Untracked:  analysis/4.1.1_qtl.analysis_binary_ici-early.vs.pbs.ici-late_snpsqc_5.batches.Rmd.R
    Untracked:  analysis/4.1.1_qtl.analysis_binary_ici-early.vs.pbs.ici-late_snpsqc_5.batches_mis.Rmd
    Untracked:  analysis/4.1.1_qtl.analysis_binary_ici-early.vs.pbs.ici-late_snpsqc_5.batches_mis.Rmd.R
    Untracked:  analysis/4.1.1_qtl.analysis_binary_ici-early.vs.pbs.ici-late_snpsqc_dis_no-x_updated_5.batches.Rmd
    Untracked:  analysis/4.1.1_qtl.analysis_binary_ici-early.vs.pbs.ici-late_snpsqc_dis_no-x_updated_5.batches.Rmd.R
    Untracked:  analysis/4.1.1_qtl.analysis_binary_ici-early.vs.pbs.ici-late_snpsqc_dis_no-x_updated_5.batches_mis.Rmd
    Untracked:  analysis/4.1.1_qtl.analysis_binary_ici-early.vs.pbs.ici-late_snpsqc_dis_no-x_updated_5.batches_mis.Rmd.R
    Untracked:  analysis/4.1.1_qtl.analysis_binary_ici.vs.eoi_snpsqc_dis_no-x_updated_5.batches_11.Rmd
    Untracked:  analysis/4.1.1_qtl.analysis_binary_ici.vs.eoi_snpsqc_dis_no-x_updated_5.batches_mis_11.Rmd
    Untracked:  analysis/4.1.1_qtl.analysis_binary_ici.vs.pbs_snpsqc_5.batches_1.Rmd
    Untracked:  analysis/4.1.1_qtl.analysis_binary_ici.vs.pbs_snpsqc_5.batches_mis_1.Rmd
    Untracked:  analysis/4.1.1_qtl.analysis_binary_ici.vs.pbs_snpsqc_dis_no-x_updated_5.batches_1.Rmd
    Untracked:  analysis/4.1.1_qtl.analysis_binary_ici.vs.pbs_snpsqc_dis_no-x_updated_5.batches_11.Rmd
    Untracked:  analysis/4.1.1_qtl.analysis_binary_ici.vs.pbs_snpsqc_dis_no-x_updated_5.batches_mis_11.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici-early.vs.pbs.ici-late_pheno.corrected.cleaned_5.batches.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici-early.vs.pbs.ici-late_pheno.corrected.cleaned_5.batches.Rmd.R
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici-early.vs.pbs.ici-late_pheno.corrected.cleaned_5.batches_mis.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici-early.vs.pbs.ici-late_pheno.corrected.cleaned_5.batches_mis.Rmd.R
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici-early.vs.pbs.ici-late_snpsqc_pheno.corrected.cleaned_5.batches.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici-early.vs.pbs.ici-late_snpsqc_pheno.corrected.cleaned_5.batches.Rmd.R
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici-early.vs.pbs.ici-late_snpsqc_pheno.corrected.cleaned_5.batches_mis.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici-early.vs.pbs.ici-late_snpsqc_pheno.corrected.cleaned_5.batches_mis.Rmd.R
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici-early.vs.pbs.ici-late_snpsqc_pheno.corrected.cleaned_dis_no-xk_5.batches.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici-early.vs.pbs.ici-late_snpsqc_pheno.corrected.cleaned_dis_no-xk_5.batches.Rmd.R
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici-early.vs.pbs.ici-late_snpsqc_pheno.corrected.cleaned_dis_no-xk_5.batches_mis.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici-early.vs.pbs.ici-late_snpsqc_pheno.corrected.cleaned_dis_no-xk_5.batches_mis.Rmd.R
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici.vs.eoi_pheno.corrected.cleaned_5.batches_0.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici.vs.eoi_pheno.corrected.cleaned_5.batches_52.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici.vs.eoi_pheno.corrected.cleaned_5.batches_changed.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici.vs.eoi_pheno.corrected.cleaned_5.batches_mis_0.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici.vs.eoi_pheno.corrected.cleaned_5.batches_mis_52.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici.vs.eoi_pheno.corrected.cleaned_5.batches_mis_changed.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici.vs.eoi_pheno.corrected.cleaned_scanone_5.batches.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici.vs.eoi_pheno.corrected.cleaned_scanone_5.batches_mis.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici.vs.eoi_snpsqc_pheno.corrected.cleaned_5.batches_0.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici.vs.eoi_snpsqc_pheno.corrected.cleaned_5.batches_52.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici.vs.eoi_snpsqc_pheno.corrected.cleaned_5.batches_mis_0.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici.vs.eoi_snpsqc_pheno.corrected.cleaned_5.batches_mis_52.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici.vs.eoi_snpsqc_pheno.corrected.cleaned_5.batches_oops.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici.vs.eoi_snpsqc_pheno.corrected.cleaned_dis.Rmd.R
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici.vs.eoi_snpsqc_pheno.corrected.cleaned_dis_no-xk_5.batches_0.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici.vs.eoi_snpsqc_pheno.corrected.cleaned_dis_no-xk_5.batches_52.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici.vs.eoi_snpsqc_pheno.corrected.cleaned_dis_no-xk_5.batches_mis_0.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici.vs.eoi_snpsqc_pheno.corrected.cleaned_dis_no-xk_5.batches_mis_52.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici.vs.eoi_snpsqc_pheno.corrected.cleaned_test.with.4.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici.vs.eoi_snpsqc_pheno.corrected.cleaned_test.with.4.Rmd.R
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici.vs.eoi_snpsqc_pheno.corrected.cleaned_test.with.4_miss.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici.vs.eoi_snpsqc_pheno.corrected.cleaned_test.with.4_miss.Rmd.R
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici.vs.eoi_snpsqc_pheno.corrected.cleaned_test.with.5.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici.vs.eoi_snpsqc_pheno.corrected.cleaned_test.with.5.Rmd.R
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici.vs.eoi_snpsqc_pheno.corrected.cleaned_test.with.5_0.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_age_ici.vs.eoi_snpsqc_pheno.corrected.cleaned_test.with.5_0.Rmd.R
    Untracked:  analysis/4.1.2_qtl.analysis_cont_rz.age_ici-early.vs.pbs.ici-late_pheno.corrected.cleaned_5.batches.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_rz.age_ici-early.vs.pbs.ici-late_pheno.corrected.cleaned_5.batches.Rmd.R
    Untracked:  analysis/4.1.2_qtl.analysis_cont_rz.age_ici-early.vs.pbs.ici-late_pheno.corrected.cleaned_5.batches_mis.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_rz.age_ici-early.vs.pbs.ici-late_pheno.corrected.cleaned_5.batches_mis.Rmd.R
    Untracked:  analysis/4.1.2_qtl.analysis_cont_rz.age_ici-early.vs.pbs.ici-late_snpsqc_pheno.corrected.cleaned_5.batches.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_rz.age_ici-early.vs.pbs.ici-late_snpsqc_pheno.corrected.cleaned_5.batches.Rmd.R
    Untracked:  analysis/4.1.2_qtl.analysis_cont_rz.age_ici-early.vs.pbs.ici-late_snpsqc_pheno.corrected.cleaned_5.batches_mis.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_rz.age_ici-early.vs.pbs.ici-late_snpsqc_pheno.corrected.cleaned_5.batches_mis.Rmd.R
    Untracked:  analysis/4.1.2_qtl.analysis_cont_rz.age_ici-early.vs.pbs.ici-late_snpsqc_pheno.corrected.cleaned_dis_no-xk_5.batches.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_rz.age_ici-early.vs.pbs.ici-late_snpsqc_pheno.corrected.cleaned_dis_no-xk_5.batches.Rmd.R
    Untracked:  analysis/4.1.2_qtl.analysis_cont_rz.age_ici-early.vs.pbs.ici-late_snpsqc_pheno.corrected.cleaned_dis_no-xk_5.batches_mis.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_rz.age_ici-early.vs.pbs.ici-late_snpsqc_pheno.corrected.cleaned_dis_no-xk_5.batches_mis.Rmd.R
    Untracked:  analysis/4.1.2_qtl.analysis_cont_rz.age_ici.vs.eoi_pheno.corrected.cleaned_5.batches_0.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_rz.age_ici.vs.eoi_pheno.corrected.cleaned_5.batches_52.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_rz.age_ici.vs.eoi_pheno.corrected.cleaned_5.batches_mis_0.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_rz.age_ici.vs.eoi_pheno.corrected.cleaned_5.batches_mis_52.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_rz.age_ici.vs.eoi_pheno.corrected.cleaned_5.batches_mis_vo.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_rz.age_ici.vs.eoi_pheno.corrected.cleaned_5.batches_mis_vo1.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_rz.age_ici.vs.eoi_pheno.corrected.cleaned_5.batches_vo.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_rz.age_ici.vs.eoi_pheno.corrected.cleaned_5.batches_vo1.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_rz.age_ici.vs.eoi_snpsqc_pheno.corrected.cleaned_5.batches_0.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_rz.age_ici.vs.eoi_snpsqc_pheno.corrected.cleaned_5.batches_52.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_rz.age_ici.vs.eoi_snpsqc_pheno.corrected.cleaned_5.batches_mis_0.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_rz.age_ici.vs.eoi_snpsqc_pheno.corrected.cleaned_5.batches_mis_52.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_rz.age_ici.vs.eoi_snpsqc_pheno.corrected.cleaned_dis_no-xk_5.batches_0.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_rz.age_ici.vs.eoi_snpsqc_pheno.corrected.cleaned_dis_no-xk_5.batches_52.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_rz.age_ici.vs.eoi_snpsqc_pheno.corrected.cleaned_dis_no-xk_5.batches_mis_0.Rmd
    Untracked:  analysis/4.1.2_qtl.analysis_cont_rz.age_ici.vs.eoi_snpsqc_pheno.corrected.cleaned_dis_no-xk_5.batches_mis_52.Rmd
    Untracked:  analysis/genotype.frequencies_ici-early.vs.pbs.ici-late_5.batches.Rmd
    Untracked:  analysis/genotype.frequencies_ici-early.vs.pbs.ici-late_5.batches.Rmd.R
    Untracked:  analysis/genotype.frequencies_ici-early.vs.pbs.ici-late_5.batches_mis.Rmd
    Untracked:  analysis/genotype.frequencies_ici-early.vs.pbs.ici-late_5.batches_mis.Rmd.R
    Untracked:  analysis/genotype.frequencies_ici.vs.eoi_5.batches_0.Rmd
    Untracked:  analysis/genotype.frequencies_ici.vs.eoi_5.batches_52.Rmd
    Untracked:  analysis/genotype.frequencies_ici.vs.eoi_5.batches_mis_0.Rmd
    Untracked:  analysis/genotype.frequencies_ici.vs.eoi_5.batches_mis_52.Rmd
    Untracked:  analysis/index_5.batches_additional_vo.Rmd
    Untracked:  data/GM_covar.csv
    Untracked:  data/GM_covar_BC312.csv
    Untracked:  data/bad_markers_all_4.batches.RData
    Untracked:  data/bad_markers_all_5.batches.RData
    Untracked:  data/blup_sub_chr10_lod.drop-1.5_5.batches.csv
    Untracked:  data/blup_sub_chr3_lod.drop-1.5.csv
    Untracked:  data/blup_sub_chr3_lod.drop-1.5_5.batches.csv
    Untracked:  data/blup_sub_chr4_lod.drop-1.5.csv
    Untracked:  data/blup_sub_chr4_lod.drop-1.5_5.batches.csv
    Untracked:  data/covar_cleaned_ici.vs.eoi.csv
    Untracked:  data/covar_cleaned_ici.vs.pbs.csv
    Untracked:  data/covar_corrected.cleaned_ici-early.vs.pbs.ici-late_5.batches.csv
    Untracked:  data/covar_corrected.cleaned_ici-early.vs.pbs.ici-late_5.batches_mis.csv
    Untracked:  data/covar_corrected.cleaned_ici-early.vs.pbs_5.batches.csv
    Untracked:  data/covar_corrected.cleaned_ici-early.vs.pbs_5.batches_0.csv
    Untracked:  data/covar_corrected.cleaned_ici-early.vs.pbs_5.batches_52.csv
    Untracked:  data/covar_corrected.cleaned_ici-early.vs.pbs_5.batches_mis.csv
    Untracked:  data/covar_corrected.cleaned_ici-early.vs.pbs_5.batches_mis_0.csv
    Untracked:  data/covar_corrected.cleaned_ici-early.vs.pbs_5.batches_mis_52.csv
    Untracked:  data/covar_corrected.cleaned_ici.vs.eoi.csv
    Untracked:  data/covar_corrected.cleaned_ici.vs.eoi1.csv
    Untracked:  data/covar_corrected.cleaned_ici.vs.eoi_5.batches.csv
    Untracked:  data/covar_corrected.cleaned_ici.vs.eoi_5.batches_0.csv
    Untracked:  data/covar_corrected.cleaned_ici.vs.eoi_5.batches_52.csv
    Untracked:  data/covar_corrected.cleaned_ici.vs.eoi_5.batches_mis.csv
    Untracked:  data/covar_corrected.cleaned_ici.vs.eoi_5.batches_mis_0.csv
    Untracked:  data/covar_corrected.cleaned_ici.vs.eoi_5.batches_mis_52.csv
    Untracked:  data/covar_corrected.cleaned_ici.vs.pbs.csv
    Untracked:  data/covar_corrected.cleaned_ici.vs.pbs1.csv
    Untracked:  data/covar_corrected.cleaned_ici.vs.pbs_5.batches.csv
    Untracked:  data/covar_corrected.cleaned_ici.vs.pbs_5.batches_0.csv
    Untracked:  data/covar_corrected.cleaned_ici.vs.pbs_5.batches_52.csv
    Untracked:  data/covar_corrected.cleaned_ici.vs.pbs_5.batches_mis.csv
    Untracked:  data/covar_corrected.cleaned_ici.vs.pbs_5.batches_mis_0.csv
    Untracked:  data/covar_corrected.cleaned_ici.vs.pbs_5.batches_mis_52.csv
    Untracked:  data/covar_corrected_ici-early.vs.pbs.ici-late_5.batches.csv
    Untracked:  data/covar_corrected_ici-early.vs.pbs.ici-late_5.batches_mis.csv
    Untracked:  data/covar_corrected_ici-early.vs.pbs_5.batches.csv
    Untracked:  data/covar_corrected_ici-early.vs.pbs_5.batches_0.csv
    Untracked:  data/covar_corrected_ici-early.vs.pbs_5.batches_52.csv
    Untracked:  data/covar_corrected_ici-early.vs.pbs_5.batches_mis.csv
    Untracked:  data/covar_corrected_ici-early.vs.pbs_5.batches_mis_0.csv
    Untracked:  data/covar_corrected_ici-early.vs.pbs_5.batches_mis_52.csv
    Untracked:  data/covar_corrected_ici.vs.eoi.csv
    Untracked:  data/covar_corrected_ici.vs.eoi1.csv
    Untracked:  data/covar_corrected_ici.vs.eoi_5.batches.csv
    Untracked:  data/covar_corrected_ici.vs.eoi_5.batches_0.csv
    Untracked:  data/covar_corrected_ici.vs.eoi_5.batches_52.csv
    Untracked:  data/covar_corrected_ici.vs.eoi_5.batches_mis.csv
    Untracked:  data/covar_corrected_ici.vs.eoi_5.batches_mis_0.csv
    Untracked:  data/covar_corrected_ici.vs.eoi_5.batches_mis_52.csv
    Untracked:  data/covar_corrected_ici.vs.pbs.csv
    Untracked:  data/covar_corrected_ici.vs.pbs1.csv
    Untracked:  data/covar_corrected_ici.vs.pbs_5.batches.csv
    Untracked:  data/covar_corrected_ici.vs.pbs_5.batches_0.csv
    Untracked:  data/covar_corrected_ici.vs.pbs_5.batches_52.csv
    Untracked:  data/covar_corrected_ici.vs.pbs_5.batches_mis.csv
    Untracked:  data/covar_corrected_ici.vs.pbs_5.batches_mis_0.csv
    Untracked:  data/covar_corrected_ici.vs.pbs_5.batches_mis_52.csv
    Untracked:  data/e.RData
    Untracked:  data/e_BC312.RData
    Untracked:  data/e_snpg_samqc_4.batches.RData
    Untracked:  data/e_snpg_samqc_4.batches_bc.RData
    Untracked:  data/e_snpg_samqc_5.batches.RData
    Untracked:  data/errors_ind_4.batches.RData
    Untracked:  data/errors_ind_4.batches_bc.RData
    Untracked:  data/errors_ind_5.batches.RData
    Untracked:  data/files.to.sync.txt
    Untracked:  data/fitqtl_chr3.peak_chr4.peak_additive.txt
    Untracked:  data/fitqtl_chr3.peak_chr4.peak_interacting.txt
    Untracked:  data/fitqtl_chr3.peak_chr4.peak_sex_additive.txt
    Untracked:  data/fitqtl_chr3.peak_chr4.peak_sex_interacting.txt
    Untracked:  data/g2blup_effects.csv
    Untracked:  data/g2blup_effects.xlsx
    Untracked:  data/genes_chr10_lod.drop-1.5_5.batches.csv
    Untracked:  data/genes_chr3_lod.drop-1.5.csv
    Untracked:  data/genes_chr3_lod.drop-1.5_5.batches.csv
    Untracked:  data/genes_chr4_lod.drop-1.5.csv
    Untracked:  data/genetic_map.csv
    Untracked:  data/genetic_map_BC312.csv
    Untracked:  data/genotype_errors_marker_4.batches.RData
    Untracked:  data/genotype_errors_marker_5.batches.RData
    Untracked:  data/genotype_freq_marker_4.batches.RData
    Untracked:  data/genotype_freq_marker_5.batches.RData
    Untracked:  data/gm_allqc_4.batches.RData
    Untracked:  data/gm_allqc_5.batches.RData
    Untracked:  data/gm_allqc_5.batches_mis.RData
    Untracked:  data/gm_samqc_3.batches.RData
    Untracked:  data/gm_samqc_4.batches.RData
    Untracked:  data/gm_samqc_4.batches_bc.RData
    Untracked:  data/gm_samqc_5.batches.RData
    Untracked:  data/gm_serreze.192.RData
    Untracked:  data/gm_serreze.BC312.RData
    Untracked:  data/ici-early.vs.pbs.ici-late_age.of.onset-additive.covariates_blup_sub_chr-6_peak.marker-cr27snv203_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_age.of.onset-additive.covariates_genes_chr-6_peak.marker-cr27snv203_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_age.of.onset-interactive.covariate_blup_sub_chr-1_peak.marker-ICR134_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_age.of.onset-interactive.covariate_blup_sub_chr-1_peak.marker-ICR4119_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_age.of.onset-interactive.covariate_blup_sub_chr-1_peak.marker-JAX00262446_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_age.of.onset-interactive.covariate_blup_sub_chr-1_peak.marker-UNCHS001938_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_age.of.onset-interactive.covariate_blup_sub_chr-6_peak.marker-UNC11008761_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_age.of.onset-interactive.covariate_blup_sub_chr-6_peak.marker-UNCHS016990_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_age.of.onset-interactive.covariate_genes_chr-1_peak.marker-ICR134_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_age.of.onset-interactive.covariate_genes_chr-1_peak.marker-ICR4119_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_age.of.onset-interactive.covariate_genes_chr-1_peak.marker-JAX00262446_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_age.of.onset-interactive.covariate_genes_chr-1_peak.marker-UNCHS001938_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_age.of.onset-interactive.covariate_genes_chr-6_peak.marker-UNC11008761_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_age.of.onset-interactive.covariate_genes_chr-6_peak.marker-UNCHS016990_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_age.of.onset-no.covariates_blup_sub_chr-14_peak.marker-UNC24056202_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_age.of.onset-no.covariates_blup_sub_chr-18_peak.marker-UNC28655293_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_age.of.onset-no.covariates_blup_sub_chr-5_peak.marker-UNC10044126_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_age.of.onset-no.covariates_blup_sub_chr-8_peak.marker-JAX00667121_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_age.of.onset-no.covariates_genes_chr-14_peak.marker-UNC24056202_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_age.of.onset-no.covariates_genes_chr-18_peak.marker-UNC28655293_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_age.of.onset-no.covariates_genes_chr-5_peak.marker-UNC10044126_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_age.of.onset-no.covariates_genes_chr-8_peak.marker-JAX00667121_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-10_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-10_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-10_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-10_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-10_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-10_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-11_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-11_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-11_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-11_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-11_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-11_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-12_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-12_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-12_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-12_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-12_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-12_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-13_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-13_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-13_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-13_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-13_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-13_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-14_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-14_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-14_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-14_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-14_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-14_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-15_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-15_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-15_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-15_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-15_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-15_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-16_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-16_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-16_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-16_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-16_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-16_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-17_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-17_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-17_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-17_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-17_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-17_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-18_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-18_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-18_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-18_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-18_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-18_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-19_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-19_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-19_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-19_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-19_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-19_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-1_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-1_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-1_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-1_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-1_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-1_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-2_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-2_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-2_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-2_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-2_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-2_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-3_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-3_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-3_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-3_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-3_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-3_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-4_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-4_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-4_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-4_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-4_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-4_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-5_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-5_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-5_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-5_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-6_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-6_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-6_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-6_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-6_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-6_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-7_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-7_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-7_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-7_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-7_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-7_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-8_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-8_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-8_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-8_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-8_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-8_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-9_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-9_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-9_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-9_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-9_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-9_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-X_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-X_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-X_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-X_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-X_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.full_chr-X_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-10_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-10_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-10_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-10_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-10_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-10_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-11_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-11_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-11_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-11_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-11_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-11_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-12_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-12_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-12_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-12_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-12_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-12_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-13_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-13_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-13_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-13_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-13_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-13_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-14_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-14_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-14_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-14_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-14_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-14_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-15_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-15_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-15_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-15_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-16_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-16_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-16_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-16_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-16_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-16_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-17_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-17_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-17_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-17_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-18_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-18_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-18_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-18_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-18_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-18_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-19_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-19_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-19_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-19_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-19_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-19_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-1_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-1_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-1_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-1_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-1_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-1_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-2_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-2_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-2_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-2_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-2_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-2_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-3_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-3_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-3_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-3_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-3_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-3_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-4_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-4_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-4_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-4_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-4_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-4_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-5_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-5_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-5_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-5_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-6_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-6_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-6_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-6_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-6_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-6_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-7_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-7_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-7_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-7_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-7_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-7_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-8_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-8_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-8_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-8_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-8_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-8_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-9_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-9_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-9_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-9_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-9_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-9_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-X_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-X_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-X_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-X_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-X_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup.qc_chr-X_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_blup_sub_chr-18_peak.marker-UNCHS045343_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_genes_chr-18_peak.marker-UNCHS045343_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_gm_qtl_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_gm_qtl_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_gm_qtl_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_gm_qtl_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_gm_qtl_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_gm_qtl_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_marker.freq_low.geno.freq.removed_geno.ratio_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_marker.freq_low.geno.freq.removed_geno.ratio_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_marker.freq_low.geno.freq.removed_sample.outliers.removed_geno.ratiov_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_marker.freq_low.geno.freq.removed_sample.outliers.removed_geno.ratiov_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_marker.freq_low.probs.freq.removed_geno.ratio_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_marker.freq_low.probs.freq.removed_geno.ratio_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_marker.freq_low.probs.freq.removed_sample.outliers.removed_geno.ratio_5.batches.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_marker.freq_low.probs.freq.removed_sample.outliers.removed_geno.ratio_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs.ici-late_scanone_5.batches.Rdata
    Untracked:  data/ici-early.vs.pbs.ici-late_scanone_5.batches_mis.Rdata
    Untracked:  data/ici-early.vs.pbs.ici-late_scanone_snpsqc_5.batches.Rdata
    Untracked:  data/ici-early.vs.pbs.ici-late_scanone_snpsqc_5.batches_mis.Rdata
    Untracked:  data/ici-early.vs.pbs.ici-late_scanone_snpsqc_dis_no-x_updated_5.batches.Rdata
    Untracked:  data/ici-early.vs.pbs.ici-late_scanone_snpsqc_dis_no-x_updated_5.batches_mis.Rdata
    Untracked:  data/ici-early.vs.pbs_age.of.onset-additive.covariates_blup_sub_chr-7_peak.marker-UNC13388811_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_age.of.onset-additive.covariates_genes_chr-7_peak.marker-UNC13388811_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_age.of.onset-no.covariates_blup_sub_chr-14_peak.marker-UNC24056202_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_age.of.onset-no.covariates_blup_sub_chr-17_peak.marker-UNCJPD006614_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_age.of.onset-no.covariates_blup_sub_chr-18_peak.marker-UNCHS045343_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_age.of.onset-no.covariates_blup_sub_chr-8_peak.marker-UNC15524531_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_age.of.onset-no.covariates_blup_sub_chr-X_peak.marker-UNCHS048314_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_age.of.onset-no.covariates_genes_chr-14_peak.marker-UNC24056202_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_age.of.onset-no.covariates_genes_chr-17_peak.marker-UNCJPD006614_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_age.of.onset-no.covariates_genes_chr-18_peak.marker-UNCHS045343_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_age.of.onset-no.covariates_genes_chr-8_peak.marker-UNC15524531_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_age.of.onset-no.covariates_genes_chr-X_peak.marker-UNCHS048314_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-10_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-10_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-10_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-10_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-10_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-10_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-11_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-11_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-11_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-11_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-11_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-11_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-12_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-12_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-12_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-12_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-12_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-12_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-13_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-13_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-13_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-13_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-13_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-13_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-14_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-14_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-14_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-14_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-14_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-14_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-15_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-15_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-15_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-15_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-15_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-15_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-16_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-16_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-16_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-16_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-16_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-16_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-17_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-17_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-17_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-17_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-17_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-17_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-18_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-18_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-18_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-18_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-18_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-18_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-19_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-19_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-19_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-19_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-19_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-19_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-1_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-1_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-1_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-1_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-1_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-1_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-2_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-2_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-2_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-2_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-2_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-2_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-3_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-3_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-3_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-3_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-3_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-3_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-4_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-4_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-4_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-4_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-4_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-4_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-5_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-5_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-5_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-5_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-6_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-6_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-6_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-6_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-6_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-6_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-7_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-7_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-7_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-7_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-7_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-7_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-8_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-8_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-8_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-8_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-8_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-8_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-9_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-9_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-9_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-9_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-9_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-9_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-X_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-X_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-X_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-X_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-X_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.full_chr-X_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-10_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-10_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-10_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-10_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-10_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-10_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-11_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-11_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-11_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-11_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-11_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-11_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-12_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-12_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-12_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-12_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-12_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-12_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-13_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-13_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-13_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-13_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-13_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-13_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-14_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-14_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-14_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-14_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-14_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-14_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-15_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-15_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-15_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-15_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-16_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-16_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-16_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-16_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-16_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-16_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-17_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-17_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-17_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-17_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-18_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-18_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-18_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-18_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-18_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-18_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-19_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-19_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-19_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-19_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-19_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-19_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-1_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-1_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-1_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-1_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-1_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-1_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-2_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-2_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-2_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-2_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-2_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-2_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-3_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-3_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-3_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-3_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-3_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-3_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-4_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-4_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-4_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-4_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-4_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-4_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-5_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-5_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-5_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-5_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-6_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-6_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-6_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-6_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-6_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-6_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-7_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-7_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-7_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-7_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-7_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-7_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-8_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-8_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-8_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-8_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-8_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-8_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-9_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-9_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-9_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-9_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-9_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-9_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-X_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-X_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-X_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-X_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-X_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_blup.qc_chr-X_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_blup_sub_chr-18_peak.marker-UNCHS045343_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_genes_chr-18_peak.marker-UNCHS045343_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_gm_qtl_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_gm_qtl_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_gm_qtl_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_gm_qtl_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_gm_qtl_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_gm_qtl_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_marker.freq_low.geno.freq.removed_geno.ratio_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_marker.freq_low.geno.freq.removed_geno.ratio_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_marker.freq_low.geno.freq.removed_sample.outliers.removed_geno.ratio_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_marker.freq_low.geno.freq.removed_sample.outliers.removed_geno.ratio_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_marker.freq_low.probs.freq.removed_geno.ratio_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_marker.freq_low.probs.freq.removed_geno.ratio_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_marker.freq_low.probs.freq.removed_sample.outliers.removed_geno.ratio_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_marker.freq_low.probs.freq.removed_sample.outliers.removed_geno.ratio_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_rz.age-additive.covariates_blup_sub_chr-7_peak.marker-UNC13239362_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_rz.age-additive.covariates_blup_sub_chr-7_peak.marker-UNC13239362_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_rz.age-additive.covariates_blup_sub_chr-7_peak.marker-UNC13239362_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_rz.age-additive.covariates_blup_sub_chr-7_peak.marker-UNC13239362_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_rz.age-additive.covariates_genes_chr-7_peak.marker-UNC13239362_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_rz.age-additive.covariates_genes_chr-7_peak.marker-UNC13239362_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_rz.age-additive.covariates_genes_chr-7_peak.marker-UNC13239362_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici-early.vs.pbs_rz.age-additive.covariates_genes_chr-7_peak.marker-UNC13239362_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici-early.vs.pbs_scanone_5.batches.Rdata
    Untracked:  data/ici-early.vs.pbs_scanone_5.batches_mis.Rdata
    Untracked:  data/ici-early.vs.pbs_scanone_snpsqc_5.batches.Rdata
    Untracked:  data/ici-early.vs.pbs_scanone_snpsqc_5.batches_mis.Rdata
    Untracked:  data/ici-early.vs.pbs_scanone_snpsqc_dis_no-x_updated_5.batches.Rdata
    Untracked:  data/ici-early.vs.pbs_scanone_snpsqc_dis_no-x_updated_5.batches_mis.Rdata
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-10_peak.marker-JAX00020646_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-10_peak.marker-JAX00292499_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-10_peak.marker-JAX00292927_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-10_peak.marker-JAX00292927_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-10_peak.marker-JAX00294019_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-10_peak.marker-UNC18216614_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-10_peak.marker-UNC18240977_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-10_peak.marker-UNC18311938_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-10_peak.marker-UNC18311938_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-10_peak.marker-UNC18311938_lod.drop-1.5_snpsqc_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-10_peak.marker-UNC18311938_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-10_peak.marker-UNC18343181_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-10_peak.marker-UNC18363544_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-10_peak.marker-UNC18363544_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-10_peak.marker-UNC18363544_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-10_peak.marker-UNC18376338_lod.drop-1.5_snpsqc_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-10_peak.marker-UNCHS028236_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-10_peak.marker-UNCHS028236_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-10_peak.marker-UNCHS028536_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-10_peak.marker-UNCHS028536_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-11_peak.marker-UNC19970181_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-11_peak.marker-UNC19970181_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-11_peak.marker-UNC20090524_lod.drop-1.5_snpsqc_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-12_peak.marker-ICR499_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-12_peak.marker-ICR499_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-12_peak.marker-ICR499_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-13_peak.marker-UNCHS036773_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-13_peak.marker-UNCHS036773_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-14_peak.marker-UNC24056202_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-14_peak.marker-UNC24056202_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-15_peak.marker-UNC26070435_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-15_peak.marker-UNC26070435_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-17_peak.marker-UNCHS044241_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-17_peak.marker-UNCHS044241_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-17_peak.marker-UNCJPD006614_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-17_peak.marker-UNCrs47191360_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-18_peak.marker-UNCHS045343_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-18_peak.marker-UNCHS045343_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-2_peak.marker-UNC4609527_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-2_peak.marker-UNC4609527_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-2_peak.marker-UNCHS008007_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-2_peak.marker-UNCHS008007_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-ICR1338_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-ICR1338_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-ICR1338_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-ICR5263_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-ICR5263_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-JAX00105649_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-JAX00105649_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-JAX00106210_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-JAX00106957_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-JAX00106957_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-JAX00106957_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-JAX00107193_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-JAX00220631_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-JAX00220631_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-JAX00514662_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-JAX00514662_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-JAX00516812_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-JAX00516812_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-JAX00517674_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-JAX00517674_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-JAX00518911r_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-JAX00518911r_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-JAX00522922_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-JAX00524205_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-JAX00529707r_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-JAX00529707r_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-JAX00535764_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4809586_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4809586_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4813186_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4813186_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4813186_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4813186_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4820379_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4820379_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4836550_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4836550_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4836550_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4875653_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4875653_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4901083_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4901083_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4909519_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4909519_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4912039_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4912039_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4912288_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4912288_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4915446_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4915446_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4923398_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4923398_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4924377_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4924377_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4924377_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4938565_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4938565_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4945186_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4945186_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4947492_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4947492_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4956618_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4956618_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4957168_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4957859_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4957859_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4959266_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4959266_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4960612_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4960612_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4961542_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4961542_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4979914_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4979914_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4990111_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC4990111_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5008656_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5008656_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5008656_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5008656_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5046545_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5055259_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5062524_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5068215_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5076935_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5082757_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5083168_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5083168_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5083168_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5173293_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5192582_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5192582_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5192582_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5193970_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5213888_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5213888_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5257268_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5262472_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5262472_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5262472_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5264696_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5267813_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5270225_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5277061_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5278229_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5278229_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5282259_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5287977_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5301460_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5309136_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5321559_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5322455_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5329171_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5360055_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5454839_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5454839_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5454839_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5645844_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5645844_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5645844_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5778977_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5808246_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNC5916997_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008182_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008182_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008182_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008193_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008193_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008209_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008209_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008215_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008215_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008219_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008219_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008229_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008229_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008234_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008234_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008242_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008260_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008260_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008271_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008271_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008281_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008281_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008286_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008286_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008286_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008338_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008338_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008363_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008363_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008379_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008379_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008409_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008432_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008487_lod.drop-1.5_snpsqc_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008487_lod.drop-1.5_snpsqc_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008487_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008487_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008487_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008487_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008511_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008511_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008609_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008613_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008613_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008614_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008627_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008659_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008725_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008815_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008815_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008815_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS009066_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS009067_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS009068_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS009112_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS009224_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS009224_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS009383_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS009383_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS009693_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCHS009821_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCJPD001170_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCJPD001170_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCJPD001198_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCJPD001198_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-UNCJPD001276_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-sanger2496q_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-3_peak.marker-sanger2496q_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-4_peak.marker-UNC8250659_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-4_peak.marker-UNC8439633_lod.drop-1.5_snpsqc_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-4_peak.marker-UNC8439633_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-4_peak.marker-UNCHS012955_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-6_peak.marker-UNC11108920_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-6_peak.marker-UNC11108920_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-7_peak.marker-UNCHS020066_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-7_peak.marker-UNCHS020066_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-7_peak.marker-UNCHS020066_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-7_peak.marker-UNCHS020066_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-8_peak.marker-UNC15524531_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-8_peak.marker-UNC15524531_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-8_peak.marker-UNC15524531_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-8_peak.marker-UNC15524531_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-9_peak.marker-UNC17203597_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-9_peak.marker-UNC17203597_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-X_peak.marker-UNCHS048314_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-X_peak.marker-UNCHS048314_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-X_peak.marker-UNCHS048314_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_blup_sub_chr-X_peak.marker-UNCHS048314_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-10_peak.marker-JAX00020646_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-10_peak.marker-JAX00292499_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-10_peak.marker-JAX00292927_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-10_peak.marker-JAX00292927_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-10_peak.marker-JAX00294019_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-10_peak.marker-UNC18216614_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-10_peak.marker-UNC18240977_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-10_peak.marker-UNC18311938_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-10_peak.marker-UNC18311938_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-10_peak.marker-UNC18311938_lod.drop-1.5_snpsqc_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-10_peak.marker-UNC18311938_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-10_peak.marker-UNC18343181_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-10_peak.marker-UNC18363544_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-10_peak.marker-UNC18363544_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-10_peak.marker-UNC18363544_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-10_peak.marker-UNC18376338_lod.drop-1.5_snpsqc_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-10_peak.marker-UNCHS028236_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-10_peak.marker-UNCHS028236_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-10_peak.marker-UNCHS028536_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-10_peak.marker-UNCHS028536_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-11_peak.marker-UNC19970181_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-11_peak.marker-UNC19970181_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-11_peak.marker-UNC20090524_lod.drop-1.5_snpsqc_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-12_peak.marker-ICR499_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-12_peak.marker-ICR499_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-12_peak.marker-ICR499_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-13_peak.marker-UNCHS036773_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-13_peak.marker-UNCHS036773_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-14_peak.marker-UNC24056202_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-14_peak.marker-UNC24056202_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-15_peak.marker-UNC26070435_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-15_peak.marker-UNC26070435_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-17_peak.marker-UNCHS044241_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-17_peak.marker-UNCHS044241_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-17_peak.marker-UNCJPD006614_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-17_peak.marker-UNCrs47191360_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-18_peak.marker-UNCHS045343_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-18_peak.marker-UNCHS045343_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-2_peak.marker-UNC4609527_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-2_peak.marker-UNC4609527_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-2_peak.marker-UNCHS008007_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-2_peak.marker-UNCHS008007_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-ICR1338_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-ICR1338_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-ICR1338_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-ICR5263_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-ICR5263_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-JAX00105649_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-JAX00105649_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-JAX00106210_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-JAX00106957_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-JAX00106957_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-JAX00106957_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-JAX00107193_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-JAX00220631_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-JAX00220631_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-JAX00514662_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-JAX00514662_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-JAX00516812_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-JAX00516812_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-JAX00517674_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-JAX00517674_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-JAX00518911r_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-JAX00518911r_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-JAX00522922_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-JAX00524205_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-JAX00529707r_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-JAX00529707r_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-JAX00535764_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4809586_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4809586_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4813186_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4813186_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4813186_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4813186_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4820379_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4820379_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4836550_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4836550_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4836550_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4875653_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4875653_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4901083_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4901083_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4909519_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4909519_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4912039_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4912039_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4912288_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4912288_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4915446_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4915446_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4923398_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4923398_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4924377_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4924377_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4924377_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4938565_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4938565_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4945186_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4945186_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4947492_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4947492_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4956618_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4956618_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4957168_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4957859_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4957859_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4959266_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4959266_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4960612_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4960612_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4961542_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4961542_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4979914_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4979914_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4990111_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC4990111_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5008656_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5008656_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5008656_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5008656_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5046545_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5055259_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5062524_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5068215_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5076935_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5082757_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5083168_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5083168_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5083168_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5173293_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5192582_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5192582_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5192582_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5193970_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5213888_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5213888_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5257268_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5262472_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5262472_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5262472_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5264696_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5267813_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5270225_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5277061_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5278229_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5278229_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5282259_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5287977_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5301460_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5309136_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5321559_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5322455_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5329171_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5360055_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5454839_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5454839_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5454839_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5645844_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5645844_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5645844_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5778977_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5808246_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNC5916997_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008182_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008182_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008182_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008193_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008193_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008209_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008209_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008215_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008215_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008219_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008219_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008229_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008229_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008234_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008234_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008242_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008260_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008260_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008271_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008271_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008281_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008281_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008286_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008286_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008286_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008338_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008338_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008363_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008363_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008379_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008379_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008409_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008432_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008487_lod.drop-1.5_snpsqc_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008487_lod.drop-1.5_snpsqc_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008487_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008487_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008487_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008487_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008511_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008511_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008609_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008613_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008613_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008614_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008627_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008659_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008725_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008815_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008815_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS008815_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS009066_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS009067_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS009068_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS009112_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS009224_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS009224_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS009383_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS009383_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS009693_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCHS009821_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCJPD001170_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCJPD001170_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCJPD001198_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCJPD001198_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-UNCJPD001276_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-sanger2496q_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-3_peak.marker-sanger2496q_lod.drop-1.5_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-4_peak.marker-UNC8250659_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-4_peak.marker-UNC8439633_lod.drop-1.5_snpsqc_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-4_peak.marker-UNC8439633_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-4_peak.marker-UNCHS012955_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-6_peak.marker-UNC11108920_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-6_peak.marker-UNC11108920_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-7_peak.marker-UNCHS020066_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-7_peak.marker-UNCHS020066_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-7_peak.marker-UNCHS020066_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-7_peak.marker-UNCHS020066_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-8_peak.marker-UNC15524531_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-8_peak.marker-UNC15524531_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-8_peak.marker-UNC15524531_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-8_peak.marker-UNC15524531_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-9_peak.marker-UNC17203597_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-9_peak.marker-UNC17203597_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-X_peak.marker-UNCHS048314_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-X_peak.marker-UNCHS048314_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-X_peak.marker-UNCHS048314_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_age.of.onset-no.covariates_genes_chr-X_peak.marker-UNCHS048314_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-10_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-10_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-11_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-11_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-12_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-12_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-13_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-13_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-14_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-14_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-15_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-15_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-16_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-16_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-17_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-17_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-18_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-18_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-19_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-19_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-1_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-1_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-2_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-2_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-3_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-3_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-4_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-4_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-6_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-6_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-7_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-7_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-8_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-8_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-9_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-9_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-X_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.full_chr-X_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-10_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-10_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-10_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-10_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-10_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-10_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-10_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-11_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-11_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-11_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-11_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-11_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-11_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-11_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-12_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-12_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-12_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-12_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-12_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-12_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-12_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-13_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-13_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-13_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-13_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-13_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-13_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-13_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-14_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-14_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-14_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-14_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-14_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-14_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-15_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-15_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-15_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-15_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-15_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-16_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-16_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-16_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-16_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-16_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-16_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-17_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-17_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-17_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-17_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-17_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-17_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-18_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-18_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-18_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-18_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-18_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-18_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-19_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-19_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-19_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-19_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-19_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-19_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-1_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-1_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-1_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-1_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-1_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-1_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-1_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-2_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-2_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-2_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-2_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-2_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-2_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-2_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-3_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-3_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-3_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-3_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-3_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-3_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-3_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-4_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-4_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-4_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-4_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-4_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-4_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-4_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-5_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-5_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-6_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-6_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-6_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-6_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-6_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-6_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-6_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-7_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-7_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-7_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-7_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-7_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-7_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-7_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-8_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-8_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-8_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-8_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-8_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-8_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-8_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-9_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-9_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-9_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-9_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-9_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-9_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-9_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-X_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-X_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-X_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-X_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-X_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup.qc_chr-X_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-10_peak.marker-ICR4295_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-10_peak.marker-JAX00292499_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-10_peak.marker-JAX00292927_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-10_peak.marker-JAX00292927_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-10_peak.marker-JAX00292927_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-10_peak.marker-UNC18154330_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-10_peak.marker-UNC18195765_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-10_peak.marker-UNC18216614_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-10_peak.marker-UNC18240977_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-10_peak.marker-UNC18311938_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-10_peak.marker-UNC18856953_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-10_peak.marker-UNCHS028236_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-10_peak.marker-UNCHS028536_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-10_peak.marker-UNCJPD004316_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-10_peak.marker-UNCJPD009532_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-11_peak.marker-UNC19155926_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-11_peak.marker-UNC19481366_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-11_peak.marker-UNC19970181_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-11_peak.marker-UNC19970181_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-11_peak.marker-UNCJPD004792_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-12_peak.marker-ICR4497_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-12_peak.marker-ICR499_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-13_peak.marker-UNCHS036773_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-13_peak.marker-UNCHS036964_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-14_peak.marker-UNC24056202_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-14_peak.marker-UNC24056202_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-15_peak.marker-UNC26070435_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-17_peak.marker-UNCHS044241_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-17_peak.marker-UNCHS044241_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-17_peak.marker-UNCrs47191360_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-17_peak.marker-UNCrs47191360_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-18_peak.marker-UNCHS045343_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-18_peak.marker-UNCHS045344_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-19_peak.marker-UNCJPD007087_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-1_peak.marker-ICR010_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-1_peak.marker-ICR010_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-2_peak.marker-UNC4609527_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-2_peak.marker-UNC4609660_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-B6_rs31740628_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-ICR1269_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-ICR1338_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-ICR5325_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-ICR5347_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-ICR5348_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-JAX00104971_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-JAX00105059_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-JAX00105203_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-JAX00106957_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-JAX00106957_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-JAX00107930_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-JAX00107980_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-JAX00108068_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-JAX00108114_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-JAX00109750_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-JAX00189245_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-JAX00514662_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-JAX00517218_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-JAX00517674_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-JAX00517906_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-JAX00518418_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-JAX00518684_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-JAX00518911r_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-JAX00520122_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-JAX00524717_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-JAX00524828_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-JAX00525380_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-JAX00525709_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-JAX00527291_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-JAX00527587_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-JAX00529707_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-JAX00529707r_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-JAX00531601_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-JAX00532122_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC4673471_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC4681411_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC4793677_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC4799475_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC4809586_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC4813186_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC4813186_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC4820379_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC4875653_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC4909830_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC4912288_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC4914130_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC4923398_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC4924377_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC4945186_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC4947492_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC4957168_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC4957859_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC4964062_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC4979914_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC4985064_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC4990111_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC4991565_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5001723_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5008656_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5008656_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5042361_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5055259_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5076935_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5082757_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5083168_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5173293_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5182782_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5192582_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5193970_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5213888_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5240484_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5256922_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5266664_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5266711_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5267813_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5274554_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5277061_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5282259_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5287977_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5301460_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5321559_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5322455_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5328596_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5350384_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5354724_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5375208_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5384072_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5400314_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5433945_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5435874_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5454839_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5454839_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5466669_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5517972_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5522257_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5523265_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5532424_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5553882_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5572051_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5582753_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5589260_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5595555_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5623239_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5639830_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5645844_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5645844_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5680234_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5682314_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5725356_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5727351_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5734420_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5743257_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5751567_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5752623_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5776974_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5778977_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5788507_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5792468_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5794598_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5795561_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5802298_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5806628_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5808246_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5817478_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5836999_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5841501_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5847927_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNC5966417_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008129_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008173_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008182_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008193_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008209_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008215_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008219_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008231_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008235_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008242_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008253_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008256_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008259_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008271_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008286_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008286_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008311_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008317_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008372_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008379_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008410_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008415_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008431_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008487_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008487_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008487_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008511_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008609_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008614_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008649_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008651_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008656_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008723_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008802_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008803_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008808_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008815_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008815_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008834_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008838_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008914_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008928_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008948_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008959_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008973_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS008987_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS009001_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS009025_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS009034_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS009087_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS009109_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS009142_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS009207_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS009216_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS009224_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS009306_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS009316_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS009364_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS009377_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS009382_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS009383_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS009387_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS009395_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS009413_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS009428_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS009463_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS009503_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS009532_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS009541_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS009560_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCHS009574_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCJPD001170_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCJPD001198_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCJPD001276_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCJPD001315_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCJPD001355_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCJPD001373_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-3_peak.marker-UNCJPD001382_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-4_peak.marker-UNC6851205_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-4_peak.marker-UNC8250659_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-4_peak.marker-UNC8299912_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-4_peak.marker-UNC8300499_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-4_peak.marker-UNC8381981_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-4_peak.marker-UNC8436434_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-4_peak.marker-UNC8439633_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-4_peak.marker-UNC8530763_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-4_peak.marker-UNCHS012948_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-4_peak.marker-UNCHS012976_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-4_peak.marker-UNCHS013118_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-4_peak.marker-UNCHS013118_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-4_peak.marker-UNCHS013118_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-4_peak.marker-UNCHS013130_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-4_peak.marker-UNCHS013139_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-4_peak.marker-UNCHS013304_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-5_peak.marker-JAX00590770_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-5_peak.marker-UNC10044126_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-7_peak.marker-ICR1830_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-7_peak.marker-UNC13170794_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-7_peak.marker-UNCHS019480_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-7_peak.marker-UNCHS020066_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-7_peak.marker-UNCHS020066_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-7_peak.marker-cr31snv87_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-8_peak.marker-JAX00667121_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-8_peak.marker-UNC15430711_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-8_peak.marker-UNC15524531_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-8_peak.marker-UNC15524531_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-8_peak.marker-UNC15524531_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-9_peak.marker-UNC17203329_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-9_peak.marker-UNC17203597_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-9_peak.marker-UNCHS024593_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-X_peak.marker-UNC30627130_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-X_peak.marker-UNCHS048313_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-X_peak.marker-UNCHS048314_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_blup_sub_chr-X_peak.marker-UNCHS048314_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_fitqtl_peaks_additive_5.batches.txt
    Untracked:  data/ici.vs.eoi_fitqtl_peaks_additive_5.batches_mis.txt
    Untracked:  data/ici.vs.eoi_fitqtl_peaks_additive_snpsqc_5.batches.txt
    Untracked:  data/ici.vs.eoi_fitqtl_peaks_additive_snpsqc_dis_no-x_updated_5.batches.txt
    Untracked:  data/ici.vs.eoi_fitqtl_peaks_additive_snpsqc_dis_no-x_updated_5.batches_mis.txt
    Untracked:  data/ici.vs.eoi_fitqtl_peaks_interacting_5.batches.txt
    Untracked:  data/ici.vs.eoi_fitqtl_peaks_interacting_5.batches_mis.txt
    Untracked:  data/ici.vs.eoi_fitqtl_peaks_interacting_snpsqc_5.batches.txt
    Untracked:  data/ici.vs.eoi_fitqtl_peaks_interacting_snpsqc_dis_no-x_updated_5.batches.txt
    Untracked:  data/ici.vs.eoi_fitqtl_peaks_interacting_snpsqc_dis_no-x_updated_5.batches_mis.txt
    Untracked:  data/ici.vs.eoi_fitqtl_peaks_sex_additive_5.batches.txt
    Untracked:  data/ici.vs.eoi_fitqtl_peaks_sex_additive_5.batches_mis.txt
    Untracked:  data/ici.vs.eoi_fitqtl_peaks_sex_additive_snpsqc_5.batches.txt
    Untracked:  data/ici.vs.eoi_fitqtl_peaks_sex_additive_snpsqc_dis_no-x_updated_5.batches.txt
    Untracked:  data/ici.vs.eoi_fitqtl_peaks_sex_additive_snpsqc_dis_no-x_updated_5.batches_mis.txt
    Untracked:  data/ici.vs.eoi_fitqtl_peaks_sex_interacting_5.batches.txt
    Untracked:  data/ici.vs.eoi_fitqtl_peaks_sex_interacting_5.batches_mis.txt
    Untracked:  data/ici.vs.eoi_fitqtl_peaks_sex_interacting_snpsqc_5.batches.txt
    Untracked:  data/ici.vs.eoi_fitqtl_peaks_sex_interacting_snpsqc_dis_no-x_updated_5.batches.txt
    Untracked:  data/ici.vs.eoi_fitqtl_peaks_sex_interacting_snpsqc_dis_no-x_updated_5.batches_mis.mis.txt
    Untracked:  data/ici.vs.eoi_genes_chr-10_peak.marker-ICR4295_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-10_peak.marker-JAX00292499_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-10_peak.marker-JAX00292927_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-10_peak.marker-JAX00292927_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-10_peak.marker-JAX00292927_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-10_peak.marker-UNC18154330_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-10_peak.marker-UNC18195765_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-10_peak.marker-UNC18216614_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-10_peak.marker-UNC18240977_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-10_peak.marker-UNC18311938_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-10_peak.marker-UNC18856953_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-10_peak.marker-UNCHS028236_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-10_peak.marker-UNCHS028536_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-10_peak.marker-UNCJPD004316_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-10_peak.marker-UNCJPD009532_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-11_peak.marker-UNC19155926_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-11_peak.marker-UNC19481366_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-11_peak.marker-UNC19970181_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-11_peak.marker-UNC19970181_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-11_peak.marker-UNCJPD004792_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-12_peak.marker-ICR4497_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-12_peak.marker-ICR499_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-13_peak.marker-UNCHS036773_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-13_peak.marker-UNCHS036964_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-14_peak.marker-UNC24056202_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-14_peak.marker-UNC24056202_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-15_peak.marker-UNC26070435_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-17_peak.marker-UNCHS044241_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-17_peak.marker-UNCHS044241_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-17_peak.marker-UNCrs47191360_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-17_peak.marker-UNCrs47191360_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-18_peak.marker-UNCHS045343_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-18_peak.marker-UNCHS045344_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-19_peak.marker-UNCJPD007087_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-1_peak.marker-ICR010_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-1_peak.marker-ICR010_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-2_peak.marker-UNC4609527_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-2_peak.marker-UNC4609660_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-B6_rs31740628_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-ICR1269_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-ICR1338_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-ICR5325_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-ICR5347_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-ICR5348_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-JAX00104971_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-JAX00105059_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-JAX00105203_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-JAX00106957_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-JAX00106957_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-JAX00107930_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-JAX00107980_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-JAX00108068_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-JAX00108114_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-JAX00109750_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-JAX00189245_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-JAX00514662_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-JAX00517218_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-JAX00517674_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-JAX00517906_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-JAX00518418_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-JAX00518684_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-JAX00518911r_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-JAX00520122_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-JAX00524717_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-JAX00524828_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-JAX00525380_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-JAX00525709_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-JAX00527291_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-JAX00527587_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-JAX00529707_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-JAX00529707r_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-JAX00531601_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-JAX00532122_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC4673471_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC4681411_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC4793677_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC4799475_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC4809586_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC4813186_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC4813186_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC4820379_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC4875653_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC4909830_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC4912288_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC4914130_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC4923398_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC4924377_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC4945186_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC4947492_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC4957168_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC4957859_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC4964062_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC4979914_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC4985064_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC4990111_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC4991565_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5001723_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5008656_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5008656_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5042361_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5055259_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5076935_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5082757_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5083168_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5173293_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5182782_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5192582_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5193970_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5213888_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5240484_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5256922_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5266664_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5266711_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5267813_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5274554_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5277061_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5282259_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5287977_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5301460_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5321559_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5322455_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5328596_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5350384_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5354724_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5375208_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5384072_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5400314_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5433945_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5435874_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5454839_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5454839_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5466669_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5517972_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5522257_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5523265_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5532424_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5553882_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5572051_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5582753_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5589260_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5595555_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5623239_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5639830_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5645844_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5645844_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5680234_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5682314_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5725356_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5727351_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5734420_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5743257_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5751567_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5752623_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5776974_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5778977_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5788507_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5792468_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5794598_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5795561_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5802298_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5806628_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5808246_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5817478_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5836999_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5841501_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5847927_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNC5966417_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008129_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008173_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008182_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008193_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008209_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008215_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008219_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008231_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008235_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008242_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008253_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008256_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008259_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008271_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008286_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008286_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008311_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008317_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008372_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008379_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008410_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008415_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008431_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008487_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008487_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008487_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008511_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008609_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008614_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008649_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008651_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008656_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008723_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008802_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008803_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008808_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008815_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008815_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008834_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008838_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008914_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008928_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008948_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008959_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008973_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS008987_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS009001_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS009025_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS009034_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS009087_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS009109_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS009142_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS009207_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS009216_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS009224_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS009306_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS009316_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS009364_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS009377_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS009382_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS009383_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS009387_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS009395_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS009413_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS009428_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS009463_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS009503_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS009532_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS009541_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS009560_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCHS009574_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCJPD001170_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCJPD001198_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCJPD001276_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCJPD001315_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCJPD001355_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCJPD001373_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-3_peak.marker-UNCJPD001382_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-4_peak.marker-UNC6851205_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-4_peak.marker-UNC8250659_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-4_peak.marker-UNC8299912_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-4_peak.marker-UNC8300499_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-4_peak.marker-UNC8381981_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-4_peak.marker-UNC8436434_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-4_peak.marker-UNC8439633_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-4_peak.marker-UNC8530763_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-4_peak.marker-UNCHS012948_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-4_peak.marker-UNCHS012976_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-4_peak.marker-UNCHS013118_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-4_peak.marker-UNCHS013118_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-4_peak.marker-UNCHS013118_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-4_peak.marker-UNCHS013130_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-4_peak.marker-UNCHS013139_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-4_peak.marker-UNCHS013304_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-5_peak.marker-JAX00590770_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-5_peak.marker-UNC10044126_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-7_peak.marker-ICR1830_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-7_peak.marker-UNC13170794_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-7_peak.marker-UNCHS019480_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.eoi_genes_chr-7_peak.marker-UNCHS020066_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-7_peak.marker-UNCHS020066_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-7_peak.marker-cr31snv87_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-8_peak.marker-JAX00667121_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-8_peak.marker-UNC15430711_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-8_peak.marker-UNC15524531_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-8_peak.marker-UNC15524531_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-8_peak.marker-UNC15524531_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-9_peak.marker-UNC17203329_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-9_peak.marker-UNC17203597_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-9_peak.marker-UNCHS024593_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-X_peak.marker-UNC30627130_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-X_peak.marker-UNCHS048313_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-X_peak.marker-UNCHS048314_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_genes_chr-X_peak.marker-UNCHS048314_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_gm_qtl_5.batches.csv
    Untracked:  data/ici.vs.eoi_gm_qtl_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_gm_qtl_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_gm_qtl_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_gm_qtl_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.eoi_gm_qtl_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_marker.freq_low.geno.freq.removed_geno.ratio.csv
    Untracked:  data/ici.vs.eoi_marker.freq_low.geno.freq.removed_geno.ratio_5.batches.csv
    Untracked:  data/ici.vs.eoi_marker.freq_low.geno.freq.removed_geno.ratio_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_marker.freq_low.geno.freq.removed_geno.ratio_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_marker.freq_low.geno.freq.removed_geno.ratio_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_marker.freq_low.geno.freq.removed_geno.ratio_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_marker.freq_low.geno.freq.removed_geno.ratio_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_marker.freq_low.geno.freq.removed_sample.outliers.removed_geno.ratio.csv
    Untracked:  data/ici.vs.eoi_marker.freq_low.geno.freq.removed_sample.outliers.removed_geno.ratio_5.batches.csv
    Untracked:  data/ici.vs.eoi_marker.freq_low.geno.freq.removed_sample.outliers.removed_geno.ratio_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_marker.freq_low.geno.freq.removed_sample.outliers.removed_geno.ratio_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_marker.freq_low.geno.freq.removed_sample.outliers.removed_geno.ratio_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_marker.freq_low.geno.freq.removed_sample.outliers.removed_geno.ratio_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_marker.freq_low.geno.freq.removed_sample.outliers.removed_geno.ratio_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_marker.freq_low.probs.freq.removed_geno.ratio.csv
    Untracked:  data/ici.vs.eoi_marker.freq_low.probs.freq.removed_geno.ratio_5.batches.csv
    Untracked:  data/ici.vs.eoi_marker.freq_low.probs.freq.removed_geno.ratio_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_marker.freq_low.probs.freq.removed_geno.ratio_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_marker.freq_low.probs.freq.removed_geno.ratio_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_marker.freq_low.probs.freq.removed_geno.ratio_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_marker.freq_low.probs.freq.removed_geno.ratio_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_marker.freq_low.probs.freq.removed_sample.outliers.removed_geno.ratio.csv
    Untracked:  data/ici.vs.eoi_marker.freq_low.probs.freq.removed_sample.outliers.removed_geno.ratio_5.batches.csv
    Untracked:  data/ici.vs.eoi_marker.freq_low.probs.freq.removed_sample.outliers.removed_geno.ratio_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_marker.freq_low.probs.freq.removed_sample.outliers.removed_geno.ratio_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_marker.freq_low.probs.freq.removed_sample.outliers.removed_geno.ratio_5.batches_mis.csv
    Untracked:  data/ici.vs.eoi_marker.freq_low.probs.freq.removed_sample.outliers.removed_geno.ratio_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_marker.freq_low.probs.freq.removed_sample.outliers.removed_geno.ratio_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-additive.covariates_blup_sub_chr-7_peak.marker-UNC13239362_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_rz.age-additive.covariates_genes_chr-7_peak.marker-UNC13239362_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-10_peak.marker-JAX00292927_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-10_peak.marker-UNC18311938_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-10_peak.marker-UNC18343181_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-10_peak.marker-UNC18376338_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-10_peak.marker-UNC18376338_lod.drop-1.5_snpsqc_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-10_peak.marker-UNC18376338_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-10_peak.marker-UNC18382395_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-10_peak.marker-UNCHS028236_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-10_peak.marker-UNCHS028236_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-10_peak.marker-UNCHS028536_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-10_peak.marker-UNCHS029024_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-11_peak.marker-UNC19970181_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-11_peak.marker-UNC19970181_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-12_peak.marker-ICR499_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-12_peak.marker-ICR499_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-13_peak.marker-UNCHS036773_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-13_peak.marker-UNCHS036773_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-14_peak.marker-UNC24056202_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-14_peak.marker-UNC24056202_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-15_peak.marker-UNC26070435_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-15_peak.marker-UNC26070435_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-17_peak.marker-UNCHS044241_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-17_peak.marker-UNCHS044241_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-17_peak.marker-UNCHS044241_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-17_peak.marker-UNCrs47191360_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-18_peak.marker-UNCHS045343_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-18_peak.marker-UNCHS045343_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-1_peak.marker-UNC228500_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-1_peak.marker-UNC228500_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-2_peak.marker-UNC4609527_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-2_peak.marker-UNC4609527_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-ICR1338_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-ICR1338_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-ICR2047_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-JAX00106957_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-JAX00112499_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-JAX00219554_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-JAX00220631_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-JAX00514662_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-JAX00529707_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNC4813186_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNC4813186_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNC4836550_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNC4837069_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNC4912039_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNC4912039_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNC4924377_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNC4924377_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNC4956618_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNC4957168_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNC5006948_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNC5008656_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNC5083168_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNC5083168_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNC5192582_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNC5213888_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNC5213888_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNC5262472_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNC5262472_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNC5266664_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNC5300878_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNC5360055_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNC5454839_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNC5454839_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNC5645844_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNC5645844_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNC5679155_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNC5808246_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNC5945286_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNC6227106_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008182_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008286_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008286_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008487_lod.drop-1.5_snpsqc_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008487_lod.drop-1.5_snpsqc_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008487_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008487_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008487_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008487_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008511_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008511_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008595_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008613_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008613_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008815_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNCHS008815_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNCHS009067_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNCHS009383_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNCHS009693_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNCJPD001246_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-UNCJPD001341_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-3_peak.marker-sanger2623_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-4_peak.marker-UNCHS013125_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-4_peak.marker-UNCHS013125_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-6_peak.marker-UNCHS018170_lod.drop-1.5_snpsqc_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-6_peak.marker-UNCHS018231_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-7_peak.marker-UNCHS020066_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-7_peak.marker-UNCHS020066_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-7_peak.marker-UNCHS020066_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-7_peak.marker-UNCHS020066_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-8_peak.marker-UNC15524531_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-8_peak.marker-UNC15524531_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-8_peak.marker-UNC15524531_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-8_peak.marker-UNC15524531_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-9_peak.marker-UNC17203597_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-9_peak.marker-UNC17203597_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-X_peak.marker-UNCHS048314_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-X_peak.marker-UNCHS048314_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-X_peak.marker-UNCHS048314_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_blup_sub_chr-X_peak.marker-UNCHS048314_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-10_peak.marker-JAX00292927_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-10_peak.marker-UNC18311938_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-10_peak.marker-UNC18343181_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-10_peak.marker-UNC18376338_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-10_peak.marker-UNC18376338_lod.drop-1.5_snpsqc_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-10_peak.marker-UNC18376338_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-10_peak.marker-UNC18382395_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-10_peak.marker-UNCHS028236_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-10_peak.marker-UNCHS028236_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-10_peak.marker-UNCHS028536_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-10_peak.marker-UNCHS029024_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-11_peak.marker-UNC19970181_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-11_peak.marker-UNC19970181_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-12_peak.marker-ICR499_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-12_peak.marker-ICR499_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-13_peak.marker-UNCHS036773_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-13_peak.marker-UNCHS036773_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-14_peak.marker-UNC24056202_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-14_peak.marker-UNC24056202_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-15_peak.marker-UNC26070435_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-15_peak.marker-UNC26070435_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-17_peak.marker-UNCHS044241_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-17_peak.marker-UNCHS044241_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-17_peak.marker-UNCHS044241_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-17_peak.marker-UNCrs47191360_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-18_peak.marker-UNCHS045343_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-18_peak.marker-UNCHS045343_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-1_peak.marker-UNC228500_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-1_peak.marker-UNC228500_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-2_peak.marker-UNC4609527_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-2_peak.marker-UNC4609527_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-ICR1338_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-ICR1338_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-ICR2047_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-JAX00106957_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-JAX00112499_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-JAX00219554_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-JAX00220631_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-JAX00514662_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-JAX00529707_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNC4813186_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNC4813186_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNC4836550_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNC4837069_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNC4912039_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNC4912039_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNC4924377_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNC4924377_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNC4956618_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNC4957168_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNC5006948_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNC5008656_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNC5083168_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNC5083168_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNC5192582_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNC5213888_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNC5213888_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNC5262472_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNC5262472_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNC5266664_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNC5300878_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNC5360055_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNC5454839_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNC5454839_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNC5645844_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNC5645844_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNC5679155_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNC5808246_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNC5945286_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNC6227106_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNCHS008182_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNCHS008286_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNCHS008286_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNCHS008487_lod.drop-1.5_snpsqc_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNCHS008487_lod.drop-1.5_snpsqc_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNCHS008487_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNCHS008487_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNCHS008487_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNCHS008487_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNCHS008511_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNCHS008511_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNCHS008595_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNCHS008613_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNCHS008613_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNCHS008815_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNCHS008815_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNCHS009067_lod.drop-1.5_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNCHS009383_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNCHS009693_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNCJPD001246_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-UNCJPD001341_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-3_peak.marker-sanger2623_lod.drop-1.5_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-4_peak.marker-UNCHS013125_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-4_peak.marker-UNCHS013125_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-6_peak.marker-UNCHS018170_lod.drop-1.5_snpsqc_5.batches_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-6_peak.marker-UNCHS018231_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-7_peak.marker-UNCHS020066_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-7_peak.marker-UNCHS020066_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-7_peak.marker-UNCHS020066_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-7_peak.marker-UNCHS020066_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-8_peak.marker-UNC15524531_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-8_peak.marker-UNC15524531_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-8_peak.marker-UNC15524531_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-8_peak.marker-UNC15524531_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-9_peak.marker-UNC17203597_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-9_peak.marker-UNC17203597_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-X_peak.marker-UNCHS048314_lod.drop-1.5_snpsqc_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-X_peak.marker-UNCHS048314_lod.drop-1.5_snpsqc_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-X_peak.marker-UNCHS048314_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_0.csv
    Untracked:  data/ici.vs.eoi_rz.age-no.covariates_genes_chr-X_peak.marker-UNCHS048314_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_52.csv
    Untracked:  data/ici.vs.eoi_sample.genos_marker.freq_low.geno.freq.removed.csv
    Untracked:  data/ici.vs.eoi_sample.genos_marker.freq_low.geno.freq.removed_sample.outliers.removed.csv
    Untracked:  data/ici.vs.eoi_sample.genos_marker.freq_low.probs.freq.removed.csv
    Untracked:  data/ici.vs.eoi_sample.genos_marker.freq_low.probs.freq.removed_sample.outliers.removed.csv
    Untracked:  data/ici.vs.eoi_scanone_5.batches.Rdata
    Untracked:  data/ici.vs.eoi_scanone_5.batches_mis.Rdata
    Untracked:  data/ici.vs.eoi_scanone_snpsqc_5.batches.Rdata
    Untracked:  data/ici.vs.eoi_scanone_snpsqc_5.batches_mis.Rdata
    Untracked:  data/ici.vs.eoi_scanone_snpsqc_dis_no-x_updated_5.batches.Rdata
    Untracked:  data/ici.vs.pbs_age.of.onset-no.covariates_blup_sub_chr-14_peak.marker-UNC24056202_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_age.of.onset-no.covariates_blup_sub_chr-14_peak.marker-UNC24056202_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_age.of.onset-no.covariates_blup_sub_chr-17_peak.marker-UNCJPD006614_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_age.of.onset-no.covariates_blup_sub_chr-18_peak.marker-UNC28655293_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_age.of.onset-no.covariates_blup_sub_chr-18_peak.marker-UNCHS045343_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_age.of.onset-no.covariates_blup_sub_chr-5_peak.marker-UNC10044126_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_age.of.onset-no.covariates_blup_sub_chr-5_peak.marker-UNC8675939_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_age.of.onset-no.covariates_blup_sub_chr-8_peak.marker-JAX00667121_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_age.of.onset-no.covariates_blup_sub_chr-8_peak.marker-UNC15524531_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_age.of.onset-no.covariates_blup_sub_chr-X_peak.marker-UNCHS048314_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_age.of.onset-no.covariates_genes_chr-14_peak.marker-UNC24056202_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_age.of.onset-no.covariates_genes_chr-14_peak.marker-UNC24056202_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_age.of.onset-no.covariates_genes_chr-17_peak.marker-UNCJPD006614_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_age.of.onset-no.covariates_genes_chr-18_peak.marker-UNC28655293_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_age.of.onset-no.covariates_genes_chr-18_peak.marker-UNCHS045343_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_age.of.onset-no.covariates_genes_chr-5_peak.marker-UNC10044126_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_age.of.onset-no.covariates_genes_chr-5_peak.marker-UNC8675939_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_age.of.onset-no.covariates_genes_chr-8_peak.marker-JAX00667121_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_age.of.onset-no.covariates_genes_chr-8_peak.marker-UNC15524531_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_age.of.onset-no.covariates_genes_chr-X_peak.marker-UNCHS048314_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_bad.markers_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-10_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-10_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-10_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-10_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-10_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-11_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-11_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-11_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-11_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-11_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-12_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-12_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-12_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-12_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-12_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-13_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-13_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-13_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-13_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-13_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-14_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-14_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-14_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-14_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-14_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-15_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-15_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-15_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-15_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-15_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-16_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-16_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-16_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-16_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-16_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-17_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-17_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-17_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-17_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-17_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-18_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-18_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-18_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-18_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-18_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-19_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-19_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-19_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-19_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-19_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-1_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-1_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-1_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-1_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-1_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-2_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-2_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-2_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-2_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-2_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-3_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-3_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-3_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-3_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-3_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-4_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-4_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-4_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-4_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-4_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-5_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-5_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-6_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-6_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-6_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-6_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-6_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-7_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-7_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-7_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-7_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-7_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-8_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-8_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-8_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-8_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-8_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-9_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-9_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-9_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-9_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-9_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-X_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-X_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-X_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-X_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.full_chr-X_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-10_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-10_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-10_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-10_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-10_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-10_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-10_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-10_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-11_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-11_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-11_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-11_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-11_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-11_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-11_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-11_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-12_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-12_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-12_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-12_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-12_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-12_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-12_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-12_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-13_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-13_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-13_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-13_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-13_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-13_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-13_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-13_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-14_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-14_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-14_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-14_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-14_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-14_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-14_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-15_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-15_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-15_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-15_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-15_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-16_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-16_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-16_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-16_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-16_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-16_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-16_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-17_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-17_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-17_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-17_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-17_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-18_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-18_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-18_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-18_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-18_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-18_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-18_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-19_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-19_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-19_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-19_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-19_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-19_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-19_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-1_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-1_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-1_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-1_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-1_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-1_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-1_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-1_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-2_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-2_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-2_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-2_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-2_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-2_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-2_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-2_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-3_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-3_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-3_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-3_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-3_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-3_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-3_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-3_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-4_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-4_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-4_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-4_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-4_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-4_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-4_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-4_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-5_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-5_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-5_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-5_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-6_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-6_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-6_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-6_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-6_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-6_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-6_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-6_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-7_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-7_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-7_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-7_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-7_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-7_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-7_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-7_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-8_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-8_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-8_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-8_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-8_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-8_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-8_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-8_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-9_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-9_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-9_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-9_lod.drop-1.5_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-9_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-9_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-9_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-9_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-X_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-X_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-X_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-X_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-X_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-X_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup.qc_chr-X_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-10_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-10_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-10_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-10_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-10_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-11_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-11_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-11_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-11_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-11_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-12_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-12_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-12_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-12_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-12_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-13_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-13_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-13_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-13_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-13_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-14_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-14_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-14_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-14_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-14_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-15_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-15_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-15_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-16_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-16_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-16_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-16_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-16_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-17_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-17_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-17_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-18_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-18_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-18_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-18_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-18_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-19_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-19_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-19_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-19_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-19_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-1_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-1_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-1_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-1_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-1_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-2_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-2_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-2_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-2_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-2_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-3_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-3_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-3_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-3_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-3_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-4_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-4_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-4_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-4_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-4_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-5_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-5_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-5_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-5_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-5_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-6_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-6_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-6_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-6_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-6_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-7_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-7_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-7_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-7_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-7_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-8_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-8_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-8_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-8_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-8_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-9_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-9_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-9_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-9_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-9_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-X_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-X_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-X_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_chr-X_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_blup_chr-X_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_sub_chr-13_peak.marker-UNC22384241_lod.drop-1.5_snpsqc_snpsqc_5.batches_peaks.csv
    Untracked:  data/ici.vs.pbs_blup_sub_chr-18_peak.marker-UNCHS045343_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_blup_sub_chr-19_peak.marker-UNC29893228_lod.drop-1.5_snpsqc_snpsqc_5.batches_peaks.csv
    Untracked:  data/ici.vs.pbs_blup_sub_chr-19_peak.marker-UNC29990033_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_peaks.csv
    Untracked:  data/ici.vs.pbs_blup_sub_chr-19_peak.marker-UNCHS047192_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_peaks.csv
    Untracked:  data/ici.vs.pbs_blup_sub_chr-8_peak.marker-UNCHS023353_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_peaks.csv
    Untracked:  data/ici.vs.pbs_blup_sub_chr-8_peak.marker-UNCHS023353_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_peaks.csv
    Untracked:  data/ici.vs.pbs_blup_sub_chr-8_peak.marker-UNCHS023364_lod.drop-1.5_snpsqc_snpsqc_5.batches_peaks.csv
    Untracked:  data/ici.vs.pbs_fitqtl_peaks_additive_snpsqc_dis_no-x_updated_5.batches_mis_peaks.txt
    Untracked:  data/ici.vs.pbs_fitqtl_peaks_additive_snpsqc_dis_no-x_updated_5.batches_peaks.txt
    Untracked:  data/ici.vs.pbs_fitqtl_peaks_additive_snpsqc_snpsqc_5.batches_peaks.txt
    Untracked:  data/ici.vs.pbs_fitqtl_peaks_interacting_snpsqc_dis_no-x_updated_5.batches_mis_peaks.txt
    Untracked:  data/ici.vs.pbs_fitqtl_peaks_interacting_snpsqc_dis_no-x_updated_5.batches_peaks.txt
    Untracked:  data/ici.vs.pbs_fitqtl_peaks_interacting_snpsqc_snpsqc_5.batches_peaks.txt
    Untracked:  data/ici.vs.pbs_fitqtl_peaks_sex_additive_snpsqc_dis_no-x_updated_5.batches_mis_peaks.txt
    Untracked:  data/ici.vs.pbs_fitqtl_peaks_sex_additive_snpsqc_dis_no-x_updated_5.batches_peaks.txt
    Untracked:  data/ici.vs.pbs_fitqtl_peaks_sex_additive_snpsqc_snpsqc_5.batches_peaks.txt
    Untracked:  data/ici.vs.pbs_fitqtl_peaks_sex_interacting_snpsqc_dis_no-x_updated_5.batches_mis_peaks.txt
    Untracked:  data/ici.vs.pbs_fitqtl_peaks_sex_interacting_snpsqc_dis_no-x_updated_5.batches_peaks.txt
    Untracked:  data/ici.vs.pbs_fitqtl_peaks_sex_interacting_snpsqc_snpsqc_5.batches_peaks.txt
    Untracked:  data/ici.vs.pbs_genes_chr-13_peak.marker-UNC22384241_lod.drop-1.5_snpsqc_snpsqc_5.batches_peaks.csv
    Untracked:  data/ici.vs.pbs_genes_chr-18_peak.marker-UNCHS045343_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_genes_chr-19_peak.marker-UNC29893228_lod.drop-1.5_snpsqc_snpsqc_5.batches_peaks.csv
    Untracked:  data/ici.vs.pbs_genes_chr-19_peak.marker-UNC29990033_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_peaks.csv
    Untracked:  data/ici.vs.pbs_genes_chr-19_peak.marker-UNCHS047192_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_peaks.csv
    Untracked:  data/ici.vs.pbs_genes_chr-8_peak.marker-UNCHS023353_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis_peaks.csv
    Untracked:  data/ici.vs.pbs_genes_chr-8_peak.marker-UNCHS023353_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_peaks.csv
    Untracked:  data/ici.vs.pbs_genes_chr-8_peak.marker-UNCHS023364_lod.drop-1.5_snpsqc_snpsqc_5.batches_peaks.csv
    Untracked:  data/ici.vs.pbs_gm_qtl_5.batches.csv
    Untracked:  data/ici.vs.pbs_gm_qtl_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_gm_qtl_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_gm_qtl_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_gm_qtl_snpsqc_5.batches_peaks.csv
    Untracked:  data/ici.vs.pbs_gm_qtl_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_gm_qtl_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_gm_qtl_snpsqc_dis_no-x_updated_5.batches_mis_peaks.csv
    Untracked:  data/ici.vs.pbs_gm_qtl_snpsqc_dis_no-x_updated_5.batches_peaks.csv
    Untracked:  data/ici.vs.pbs_marker.freq_low.geno.freq.removed_geno.ratio.csv
    Untracked:  data/ici.vs.pbs_marker.freq_low.geno.freq.removed_geno.ratio_5.batches.csv
    Untracked:  data/ici.vs.pbs_marker.freq_low.geno.freq.removed_geno.ratio_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_marker.freq_low.geno.freq.removed_sample.outliers.removed_geno.ratio.csv
    Untracked:  data/ici.vs.pbs_marker.freq_low.geno.freq.removed_sample.outliers.removed_geno.ratio_5.batches.csv
    Untracked:  data/ici.vs.pbs_marker.freq_low.geno.freq.removed_sample.outliers.removed_geno.ratio_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_marker.freq_low.probs.freq.removed_geno.ratio.csv
    Untracked:  data/ici.vs.pbs_marker.freq_low.probs.freq.removed_geno.ratio_5.batches.csv
    Untracked:  data/ici.vs.pbs_marker.freq_low.probs.freq.removed_geno.ratio_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_marker.freq_low.probs.freq.removed_sample.outliers.removed_geno.ratio.csv
    Untracked:  data/ici.vs.pbs_marker.freq_low.probs.freq.removed_sample.outliers.removed_geno.ratio_5.batches.csv
    Untracked:  data/ici.vs.pbs_marker.freq_low.probs.freq.removed_sample.outliers.removed_geno.ratio_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_rz.age-additive.covariates_blup_sub_chr-7_peak.marker-JAX00153527_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_rz.age-additive.covariates_blup_sub_chr-7_peak.marker-JAX00153527_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_rz.age-additive.covariates_blup_sub_chr-7_peak.marker-UNCHS020443_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_rz.age-additive.covariates_blup_sub_chr-7_peak.marker-UNCHS020443_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_rz.age-additive.covariates_blup_sub_chr-7_peak.marker-UNCHS020486_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_rz.age-additive.covariates_genes_chr-7_peak.marker-JAX00153527_lod.drop-1.5_5.batches.csv
    Untracked:  data/ici.vs.pbs_rz.age-additive.covariates_genes_chr-7_peak.marker-JAX00153527_lod.drop-1.5_snpsqc_5.batches.csv
    Untracked:  data/ici.vs.pbs_rz.age-additive.covariates_genes_chr-7_peak.marker-UNCHS020443_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches.csv
    Untracked:  data/ici.vs.pbs_rz.age-additive.covariates_genes_chr-7_peak.marker-UNCHS020443_lod.drop-1.5_snpsqc_dis_no-x_updated_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_rz.age-additive.covariates_genes_chr-7_peak.marker-UNCHS020486_lod.drop-1.5_snpsqc_5.batches_mis.csv
    Untracked:  data/ici.vs.pbs_sample.genos_marker.freq_low.geno.freq.removed.csv
    Untracked:  data/ici.vs.pbs_sample.genos_marker.freq_low.geno.freq.removed_sample.outliers.removed.csv
    Untracked:  data/ici.vs.pbs_sample.genos_marker.freq_low.probs.freq.removed.csv
    Untracked:  data/ici.vs.pbs_sample.genos_marker.freq_low.probs.freq.removed_sample.outliers.removed.csv
    Untracked:  data/ici.vs.pbs_scanone_5.batches.Rdata
    Untracked:  data/ici.vs.pbs_scanone_5.batches_mis.Rdata
    Untracked:  data/ici.vs.pbs_scanone_snpsqc_5.batches.Rdata
    Untracked:  data/ici.vs.pbs_scanone_snpsqc_5.batches_mis.Rdata
    Untracked:  data/ici.vs.pbs_scanone_snpsqc_dis_no-x_updated_5.batches.Rdata
    Untracked:  data/ici.vs.pbs_scanone_snpsqc_dis_no-x_updated_5.batches_mis.Rdata
    Untracked:  data/percent_missing_id_3.batches.RData
    Untracked:  data/percent_missing_id_4.batches.RData
    Untracked:  data/percent_missing_id_4.batches_bc.RData
    Untracked:  data/percent_missing_id_5.batches.RData
    Untracked:  data/percent_missing_marker_4.batches.RData
    Untracked:  data/percent_missing_marker_5.batches.RData
    Untracked:  data/pheno.csv
    Untracked:  data/pheno_BC312.csv
    Untracked:  data/physical_map.csv
    Untracked:  data/physical_map_BC312.csv
    Untracked:  data/qc_info_bad_sample_3.batches.RData
    Untracked:  data/qc_info_bad_sample_4.batches.RData
    Untracked:  data/qc_info_bad_sample_4.batches_bc.RData
    Untracked:  data/qc_info_bad_sample_5.batches.RData
    Untracked:  data/remaining.markers_geno.freq.xlsx
    Untracked:  data/sample_geno.csv
    Untracked:  data/sample_geno_AHB_BC312.csv
    Untracked:  data/sample_geno_bc.csv
    Untracked:  data/sample_geno_bc_BC312.csv
    Untracked:  data/serreze_probs.rds
    Untracked:  data/serreze_probs_BC312.rds
    Untracked:  data/serreze_probs_allqc.rds
    Untracked:  data/serreze_probs_allqc_5.batches.rds
    Untracked:  data/serreze_probs_allqc_5.batches_mis.rds
    Untracked:  data/summary.cg_3.batches.RData
    Untracked:  data/summary.cg_4.batches.RData
    Untracked:  data/summary.cg_4.batches_bc.RData
    Untracked:  data/summary.cg_5.batches.RData
    Untracked:  output/Percent_missing_genotype_data_5.batches.pdf
    Untracked:  output/Percent_missing_genotype_data_per_marker_5.batches.pdf
    Untracked:  output/Proportion_matching_genotypes_before_removal_of_bad_samples_5.batches.pdf
    Untracked:  output/genotype_error_marker_5.batches.pdf
    Untracked:  output/genotype_frequency_marker_5.batches.pdf

Unstaged changes:
    Modified:   analysis/4.1.1_qtl.analysis_binary_ici-early.vs.pbs_5.batches.Rmd
    Modified:   analysis/4.1.1_qtl.analysis_binary_ici-early.vs.pbs_5.batches_mis.Rmd
    Modified:   analysis/4.1.1_qtl.analysis_binary_ici-early.vs.pbs_snpsqc_5.batches.Rmd
    Modified:   analysis/4.1.1_qtl.analysis_binary_ici-early.vs.pbs_snpsqc_5.batches_mis.Rmd
    Modified:   analysis/4.1.1_qtl.analysis_binary_ici-early.vs.pbs_snpsqc_dis_no-x_updated_5.batches.Rmd
    Modified:   analysis/4.1.1_qtl.analysis_binary_ici-early.vs.pbs_snpsqc_dis_no-x_updated_5.batches_mis.Rmd
    Modified:   analysis/4.1.1_qtl.analysis_binary_ici.vs.eoi_snpsqc_dis_no-x_updated.Rmd
    Modified:   analysis/4.1.1_qtl.analysis_binary_ici.vs.pbs_snpsqc_dis_no-x_updated.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_age_ici-early.vs.pbs_pheno.corrected.cleaned_5.batches.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_age_ici-early.vs.pbs_pheno.corrected.cleaned_5.batches_mis.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_age_ici-early.vs.pbs_snpsqc_pheno.corrected.cleaned_5.batches.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_age_ici-early.vs.pbs_snpsqc_pheno.corrected.cleaned_5.batches_mis.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_age_ici-early.vs.pbs_snpsqc_pheno.corrected.cleaned_dis_no-xk_5.batches.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_age_ici-early.vs.pbs_snpsqc_pheno.corrected.cleaned_dis_no-xk_5.batches_mis.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_age_ici.vs.eoi_pheno.corrected.cleaned_5.batches.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_age_ici.vs.eoi_pheno.corrected.cleaned_5.batches_mis.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_age_ici.vs.eoi_snpsqc_pheno.corrected.cleaned_5.batches.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_age_ici.vs.eoi_snpsqc_pheno.corrected.cleaned_5.batches_mis.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_age_ici.vs.eoi_snpsqc_pheno.corrected.cleaned_dis_no-xk_5.batches.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_age_ici.vs.eoi_snpsqc_pheno.corrected.cleaned_dis_no-xk_5.batches_mis.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_age_ici.vs.pbs_pheno.corrected.cleaned_5.batches.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_age_ici.vs.pbs_pheno.corrected.cleaned_5.batches_mis.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_age_ici.vs.pbs_snpsqc_pheno.corrected.cleaned_5.batches.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_age_ici.vs.pbs_snpsqc_pheno.corrected.cleaned_5.batches_mis.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_age_ici.vs.pbs_snpsqc_pheno.corrected.cleaned_dis_no-xk_5.batches.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_age_ici.vs.pbs_snpsqc_pheno.corrected.cleaned_dis_no-xk_5.batches_mis.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_rz.age_ici-early.vs.pbs_pheno.corrected.cleaned_5.batches.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_rz.age_ici-early.vs.pbs_pheno.corrected.cleaned_5.batches_mis.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_rz.age_ici-early.vs.pbs_snpsqc_pheno.corrected.cleaned_5.batches.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_rz.age_ici-early.vs.pbs_snpsqc_pheno.corrected.cleaned_5.batches_mis.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_rz.age_ici-early.vs.pbs_snpsqc_pheno.corrected.cleaned_dis_no-xk_5.batches.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_rz.age_ici-early.vs.pbs_snpsqc_pheno.corrected.cleaned_dis_no-xk_5.batches_mis.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_rz.age_ici.vs.eoi_pheno.corrected.cleaned_5.batches.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_rz.age_ici.vs.eoi_pheno.corrected.cleaned_5.batches_mis.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_rz.age_ici.vs.eoi_snpsqc_pheno.corrected.cleaned_5.batches.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_rz.age_ici.vs.eoi_snpsqc_pheno.corrected.cleaned_5.batches_mis.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_rz.age_ici.vs.eoi_snpsqc_pheno.corrected.cleaned_dis_no-xk_5.batches.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_rz.age_ici.vs.eoi_snpsqc_pheno.corrected.cleaned_dis_no-xk_5.batches_mis.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_rz.age_ici.vs.pbs_pheno.corrected.cleaned_5.batches.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_rz.age_ici.vs.pbs_pheno.corrected.cleaned_5.batches_mis.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_rz.age_ici.vs.pbs_snpsqc_pheno.corrected.cleaned_5.batches.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_rz.age_ici.vs.pbs_snpsqc_pheno.corrected.cleaned_5.batches_mis.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_rz.age_ici.vs.pbs_snpsqc_pheno.corrected.cleaned_dis_no-xk_5.batches.Rmd
    Modified:   analysis/4.1.2_qtl.analysis_cont_rz.age_ici.vs.pbs_snpsqc_pheno.corrected.cleaned_dis_no-xk_5.batches_mis.Rmd
    Modified:   analysis/index_5.batches.Rmd
    Modified:   analysis/index_5.batches_additional.Rmd

Note that any generated files, e.g. HTML, png, CSS, etc., are not included in this status report because it is ok for generated content to have uncommitted changes.

---

There are no past versions. Publish this analysis with wflow_publish() to start tracking its development.

---

Loading Data

load("data/gm_allqc_5.batches_mis.RData")

#gm_allqc
gm=gm_allqc
gm

Object of class cross2 (crosstype "bc")

Total individuals               308
No. genotyped individuals       308
No. phenotyped individuals      308
No. with both geno & pheno      308

No. phenotypes                    1
No. covariates                    6
No. phenotype covariates          0

No. chromosomes                  20
Total markers                131356

No. markers by chr:
   1    2    3    4    5    6    7    8    9   10   11   12   13   14   15   16 
9956 9987 7848 7586 7609 7736 7399 6458 6713 6385 7143 6110 6082 5966 5346 5015 
  17   18   19    X 
5080 4605 3562 4770 

table(gm$covar$"diabetic status")

  Both Projects   Diabetes Proj ICI-No Diabetes     Myocarditis      Spont. T1D 
              1               3             164               2              34 
        T1D <17          T1D<17          T1D>17 
             36              51              17 

table(gm$covar$group)

 (A2 Parental) (DQ8 Parental) B6.g7 Parental            EOI             F1 
             2              2              1            164              1 
           ICI            PBS 
           104             34 

#ICI-Early vs (PBS-T1D + ICI > 17 weeks of age)
##extracting animals with ici-early and pbs group status
miceinfo <- gm$covar[gm$covar$group == "PBS" | gm$covar$group == "ICI",]
table(miceinfo$group)

ICI PBS 
104  34 

mice.ids <- rownames(miceinfo)

gm <- gm[mice.ids]
gm

Object of class cross2 (crosstype "bc")

Total individuals               138
No. genotyped individuals       138
No. phenotyped individuals      138
No. with both geno & pheno      138

No. phenotypes                    1
No. covariates                    6
No. phenotype covariates          0

No. chromosomes                  20
Total markers                131356

No. markers by chr:
   1    2    3    4    5    6    7    8    9   10   11   12   13   14   15   16 
9956 9987 7848 7586 7609 7736 7399 6458 6713 6385 7143 6110 6082 5966 5346 5015 
  17   18   19    X 
5080 4605 3562 4770 

table(gm$covar$"diabetic status")

Spont. T1D    T1D <17     T1D<17     T1D>17 
        34         36         51         17 

table(gm$covar$group)

ICI PBS 
104  34 

#Creating a new lable for pbs+ici late and ici-early
table(gm$covar$group)

ICI PBS 
104  34 

gm$covar$group.new <- ifelse(gm$covar$"diabetic status" == "T1D>17" | gm$covar$group == "PBS", "PBS_ICI.Late", "ICI.Early")
table(gm$covar$group.new)

   ICI.Early PBS_ICI.Late 
          87           51 

#binary Yes/No T1D
gm$covar$ICI.Early.vs.PBS_ICI.Late <- ifelse(gm$covar$group.new == "PBS_ICI.Late", 0, 1)

table(gm$covar$"diabetic status")

Spont. T1D    T1D <17     T1D<17     T1D>17 
        34         36         51         17 

table(gm$covar$group)

ICI PBS 
104  34 

table(gm$covar$group.new)

   ICI.Early PBS_ICI.Late 
          87           51 

table(gm$covar$ICI.Early.vs.PBS_ICI.Late)

 0  1 
51 87 

gm.full <- gm

covars <- read_csv("data/covar_corrected.cleaned_ici-early.vs.pbs.ici-late_5.batches_mis.csv")
#removing any missing info
missing_ids <- covars[which(covars$"rz.age"==""),]$Mouse.ID
length(missing_ids)

[1] 0

missing_ids

character(0)

if(length(missing_ids) != 0){
gm <- gm[paste0("-",as.character(missing_ids)),]
gm
table(gm$covar$group)
table(gm$covar$group.new)

#keeping only mouseids in covars
covars <- covars[gm$covar$id,]
table(covars$group)
table(covars$group.new)
}

query_variants <- create_variant_query_func("/Users/corneb/Documents/MyJax/CS/Projects/support.files/qtl2/cc_variants.sqlite")
query_genes <- create_gene_query_func("/Users/corneb/Documents/MyJax/CS/Projects/support.files/qtl2/mouse_genes_mgi.sqlite")


##removing problmetic marker

gm <- drop_markers(gm, "UNCHS013106")

#pmap_interp = interp_map(map, gm$gmap, gm$pmap)
markers <- marker_names(gm)
gmapdf <- read.csv("/Users/corneb/Documents/MyJax/CS/Projects/Serreze/haplotype.reconstruction/output_5.batches/genetic_map.csv")
pmapdf <- read.csv("/Users/corneb/Documents/MyJax/CS/Projects/Serreze/haplotype.reconstruction/output_5.batches/physical_map.csv")
#mapdf <- merge(gmapdf,pmapdf, by=c("marker","chr"), all=T)
#rownames(mapdf) <- mapdf$marker
#mapdf <- mapdf[markers,]
#names(mapdf) <- c('marker','chr','gmapdf','pmapdf')
#mapdfnd <- mapdf[!duplicated(mapdf[c(2:3)]),]

pr.qc <- calc_genoprob(gm)

gm

Object of class cross2 (crosstype "bc")

Total individuals               138
No. genotyped individuals       138
No. phenotyped individuals      138
No. with both geno & pheno      138

No. phenotypes                    1
No. covariates                    8
No. phenotype covariates          0

No. chromosomes                  20
Total markers                131355

No. markers by chr:
   1    2    3    4    5    6    7    8    9   10   11   12   13   14   15   16 
9956 9987 7848 7585 7609 7736 7399 6458 6713 6385 7143 6110 6082 5966 5346 5015 
  17   18   19    X 
5080 4605 3562 4770 

Preparing necessary info

covars$rz.age <- as.numeric(covars$rz.age)
Xcovar <- get_x_covar(gm)
addcovar = model.matrix(~ICI.Early.vs.PBS_ICI.Late, data = covars)[,-1]
#addcovar.i = model.matrix(~ICI.Early.vs.PBS_ICI.Late, data = covars)[,-1]

K <- calc_kinship(pr.qc, type = "loco")
#heatmap(K[[1]])
K.overall <- calc_kinship(pr.qc, type = "overall")
#heatmap(K.overall)
kinship <- calc_kinship(pr.qc)
heatmap(kinship)

No additive covariates

Significance thresholds

operm <- scan1perm(pr.qc, covars["rz.age"], model="normal", n_perm=10, perm_Xsp=TRUE, chr_lengths=chr_lengths(gm$gmap))

summary_table<-data.frame(unclass(summary(operm, alpha=c(0.01,  0.05, 0.1))))
names(summary_table) <- c("autosomes","X")
summary_table$significance.level <- rownames(summary_table)

rownames(summary_table) <- NULL

summary_table[c(3,1:2)] %>%
  kable(escape = F,align = c("ccc")) %>%
  kable_styling("striped", full_width = T) %>%
  column_spec(1, bold=TRUE)

significance.level	autosomes	X
0.01	3.703438	3.657877
0.05	3.578645	3.655085
0.1	3.422268	3.651433

Genome-wide scan

plot_lod<-function(out,map){
  for (i in 1:dim(out)[2]){
#par(mar=c(5.1, 6.1, 1.1, 1.1))
    ymx <- maxlod(out) # overall maximum LOD score
    plot(out, map, lodcolumn=i, col="slateblue", ylim=c(0, ymx+0.5))
    #legend("topright", lwd=2, colnames(out)[i], bg="gray90")
    title(main = paste0(colnames(out)[i], " - ICI-Early vs PBS & ICI-Late (no covariates) [positions in cM]"))
    add_threshold(map,  summary(operm,alpha=0.1), col = 'purple')
    add_threshold(map,  summary(operm, alpha=0.05), col = 'red')
    add_threshold(map,  summary(operm, alpha=0.01), col = 'blue')

  }
}


print("with no kinship")

[1] “with no kinship”

outf <- scan1(pr.qc, covars["rz.age"], Xcovar=Xcovar, model="normal")

plot_lod(outf,gm$gmap)

print("with normal kinship")

[1] “with normal kinship”

outk <- scan1(pr.qc, covars["rz.age"], Xcovar=Xcovar, model="normal", kinship=kinship)

plot_lod(outk,gm$gmap)

print("with loco kinship")

[1] “with loco kinship”

out <- scan1(pr.qc, covars["rz.age"], Xcovar=Xcovar, model="normal", kinship=K)

plot_lod(out,gm$gmap)

print(paste0("number of samples in analysis = ", as.data.frame(attributes(out)$sample_size)[1,]))

[1] “number of samples in analysis = 138”

LOD peaks

Centimorgan (cM)

peaks<-find_peaks(out, gm$gmap, threshold=summary(operm,alpha=0.1)$A, thresholdX = summary(operm,alpha=0.1)$X, peakdrop=3, drop=1.5)


if(nrow(peaks) >0){
peaks$marker <- find_marker(gm$gmap, chr=peaks$chr,pos=peaks$pos)
names(peaks)[2] <- c("phenotype")
peaks <- peaks[-1]

rownames(peaks) <- NULL
print(kable(peaks, escape = F, align = c("cccccccc"), "html") 
  %>% kable_styling("striped", full_width = T)%>%
  column_spec(1, bold=TRUE)
  )

#plot only peak chromosomes

plot_lod_chr<-function(out,map,chrom){
  for (i in 1:dim(out)[2]){
    #png(filename=paste0("/Users/chenm/Documents/qtl/Jai/",colnames(out)[i],  "_lod.png"))
    
    #par(mar=c(5.1, 6.1, 1.1, 1.1))
    ymx <- maxlod(out) # overall maximum LOD score
    plot(out, map, chr = chrom, lodcolumn=i, col="slateblue", ylim=c(0, ymx+0.5))
    #legend("topright", lwd=2, colnames(out)[i], bg="gray90")
    title(main = paste0(colnames(out)[i], " - chr", chrom, " - ICI-Early vs PBS & ICI-Late (no covariates) [positions in cM]"))
    add_threshold(map,  summary(operm,alpha=0.1), col = 'purple')
    add_threshold(map,  summary(operm, alpha=0.05), col = 'red')
    add_threshold(map,  summary(operm, alpha=0.01), col = 'blue')
    #for (j in 1: dim(summary_table)[1]){
    #  abline(h=summary_table[j, i],col="red")
    #  text(x=400, y =summary_table[j, i]+0.12, labels = paste("p=", row.names(summary_table)[j]))
    #}
    #dev.off()

  }
}


for(i in unique(peaks$chr)){
#for (i in 1:nrow(peaks)){
  #plot_lod_chr(out,gm$gmap, peaks$chr[i])
  plot_lod_chr(out,gm$gmap, i)
}

} else {
  print(paste0("There are no peaks that have a LOD that reaches suggestive (p<0.1) level of ",summary(operm,alpha=0.1)$A, " [autosomes]/",summary(operm,alpha=0.1)$X, " [x-chromosome]"))
}

[1] “There are no peaks that have a LOD that reaches suggestive (p<0.1) level of 3.42226766678485 [autosomes]/3.65143262837961 [x-chromosome]”

Megabase (MB)

peaks_mba<-find_peaks(out, gm$pmap, threshold=summary(operm,alpha=0.1)$A, thresholdX = summary(operm,alpha=0.1)$X, peakdrop=3, drop=1.5)

if(nrow(peaks) >0){
peaks_mba$marker <- find_marker(gm$pmap, chr=peaks_mba$chr,pos=peaks_mba$pos)
names(peaks_mba)[2] <- c("phenotype")
peaks_mba <- peaks_mba[-1]

rownames(peaks_mba) <- NULL
print(kable(peaks_mba, escape = F, align = c("cccccccc"), "html") 
  %>% kable_styling("striped", full_width = T)%>%
  column_spec(1, bold=TRUE)
  )

  plot_lod_chr_mb<-function(out,map,chrom){
  for (i in 1:dim(out)[2]){
    #png(filename=paste0("/Users/chenm/Documents/qtl/Jai/",colnames(out)[i],  "_lod.png"))
    
    #par(mar=c(5.1, 6.1, 1.1, 1.1))
    ymx <- maxlod(out) # overall maximum LOD score
    plot(out, map, chr = chrom, lodcolumn=i, col="slateblue", ylim=c(0, ymx+0.5))
    #legend("topright", lwd=2, colnames(out)[i], bg="gray90")
    title(main = paste0(colnames(out)[i], " - chr", chrom, " - ICI-Early vs PBS & ICI-Late (no covariates) [positions in cM]"))
    add_threshold(map,  summary(operm,alpha=0.1), col = 'purple')
    add_threshold(map,  summary(operm, alpha=0.05), col = 'red')
    add_threshold(map,  summary(operm, alpha=0.01), col = 'blue')
    #for (j in 1: dim(summary_table)[1]){
    #  abline(h=summary_table[j, i],col="red")
    #  text(x=400, y =summary_table[j, i]+0.12, labels = paste("p=", row.names(summary_table)[j]))
    #}
    #dev.off()
  }
}

for(i in unique(peaks_mba$chr)){
#for (i in 1:nrow(peaks_mba)){
  #plot_lod_chr_mb(out,gm$pmap, peaks_mba$chr[i])
  plot_lod_chr_mb(out,gm$pmap,i)
}

} else {
  print(paste0("There are no peaks that have a LOD that reaches suggestive (p<0.1) level of ",summary(operm,alpha=0.1)$A, " [autosomes]/",summary(operm,alpha=0.1)$X, " [x-chromosome]"))
}

[1] “There are no peaks that have a LOD that reaches suggestive (p<0.1) level of 3.42226766678485 [autosomes]/3.65143262837961 [x-chromosome]”

QTL effects

For each peak LOD location we give a list of gene

if(nrow(peaks) >0){
for (i in 1:nrow(peaks)){
#for (i in 1:1){
  #Plot 1
  g <- maxmarg(pr.qc, gm$gmap, chr=peaks$chr[i], pos=peaks$pos[i], return_char=TRUE)
  #png(filename=paste0("/Users/chenm/Documents/qtl/Jai/","qtl_effect_", i, ".png"))
  #par(mar=c(4.1, 4.1, 1.5, 0.6))
  plot_pxg(g, covars[,peaks$phenotype[i]], ylab=peaks$phenotype[i], sort=FALSE)
  title(main = paste0("chr: ", chr=peaks$chr[i],"; pos: ", peaks$pos[i], "cM /",peaks_mba$pos[i],"MB\n(",peaks$phenotype[i]," )"), line=0.2)
  ##dev.off()

  chr = peaks$chr[i]

# Plot 2
  pr_sub <- pull_genoprobint(pr.qc, gm$gmap, chr, c(peaks$ci_lo[i], peaks$ci_hi[i]))
  #coeff <- scan1coef(pr[,chr], cross$pheno[,peaks$lodcolumn[i]], addcovar = addcovar)
  #coeff <- scan1coef(pr[,chr], cross$pheno[,peaks$lodcolumn[i]], Xcovar=Xcovar)
  #coeff <- scan1coef(pr.qc[,chr], gm$covar[peaks$lodcolumn[i]], model="binary")
  #coeff_sub <- scan1coef(pr_sub[,chr], gm$covar[peaks$lodcolumn[i]], model="binary")
  blup <- scan1blup(pr.qc[,chr], covars[peaks$phenotype[i]])
  blup_sub <- scan1blup(pr_sub[,chr], covars[peaks$phenotype[i]])

  write.csv(as.data.frame(blup_sub), paste0("data/ici-early.vs.pbs.ici-late_",peaks$phenotype[i],"-no.covariates_blup_sub_chr-",chr,"_peak.marker-",peaks$marker[i],"_lod.drop-1.5_5.batches_mis.csv"), quote=F)

  #plot_coef(coeff, 
  #     gm$gmap, columns=1:2,
  #     bgcolor="gray95", legend="bottomleft", 
  #     main = paste("chr", chr=peaks$chr[i],"; pos: ", peaks$pos[i], "cM /",peaks_mba$pos[i],"MB\n(",peaks$lodcolumn[i]," [scan1coeff; positions in cM] )")
  #     )

  #plot_coef(coeff_sub, 
  #     gm$gmap, columns=1:2,
  #     bgcolor="gray95", legend="bottomleft", 
  #     main = paste("chr", chr=peaks$chr[i],"; pos: ", peaks$pos[i], "cM /",peaks_mba$pos[i],"MB\n(",peaks$lodcolumn[i],"; 1.5 LOD drop interval [scan1coeff; positions in cM] ) ")
  #     )


  plot_coef(blup, 
       gm$gmap, columns=1:2,
       bgcolor="gray95", legend="bottomleft", 
       main = paste0("chr: ", chr=peaks$chr[i],"; pos: ", peaks$pos[i], "cM /",peaks_mba$pos[i],"MB\n(",peaks$phenotype[i]," [scan1blup; positions in cM] )")
       )

  plot_coef(blup_sub, 
       gm$gmap, columns=1:2,
       bgcolor="gray95", legend="bottomleft", 
       main = paste0("chr: ", chr=peaks$chr[i],"; pos: ", peaks$pos[i], "cM /",peaks_mba$pos[i],"MB\n(",peaks$phenotype[i],"; 1.5 LOD drop interval [scan1blup; positions in cM] )")
       )


 # Plot 3
  #c2effB <- scan1coef(pr.qc[,chr], gm$covar[peaks$lodcolumn[i]], model="binary", contrasts=cbind(a=c(-1, 0), d=c(0, -1)))
  #c2effBb <- scan1blup(pr.qc[,chr], gm$covar[peaks$lodcolumn[i]], contrasts=cbind(a=c(-1, 0), d=c(0, -1)))
  ##c2effB <- scan1coef(pr[,chr], cross$pheno[,peaks$lodcolumn[i]], addcovar = addcovar, contrasts=cbind(mu=c(1,1,1), a=c(-1, 0, 1), d=c(0, 1, 0)))
  ##c2effB <- scan1coef(pr[,chr], cross$pheno[,peaks$lodcolumn[i]],Xcovar=Xcovar, contrasts=cbind(mu=c(1,1,1), a=c(-1, 0, 1), d=c(0, 1, 0)))
  #plot(c2effB, gm$gmap[chr], columns=1:2,
  #     bgcolor="gray95", legend="bottomleft", 
  #     main = paste("chr", chr=peaks$chr[i], "pos", peaks$pos[i], "(",peaks$lodcolumn[i],")")
  #     )
  #plot(c2effBb, gm$gmap[chr], columns=1:2,
  #     bgcolor="gray95", legend="bottomleft", 
  #     main = paste("chr", chr=peaks$chr[i], "pos", peaks$pos[i], "(",peaks$lodcolumn[i],")")
  #     )
  ##last_coef <- unclass(c2effB)[nrow(c2effB),2:3] # last two coefficients
  ##for(t in seq(along=last_coef))
  ##  axis(side=4, at=last_coef[t], names(last_coef)[t], tick=FALSE)


  #Table 1
  chr = peaks_mba$chr[i]
  start=as.numeric(peaks_mba$ci_lo[i])
  end=as.numeric(peaks_mba$ci_hi[i])

  genesgss = query_genes(chr, start, end)

  write.csv(genesgss, file=paste0("data/ici-early.vs.pbs.ici-late_",peaks$phenotype[i],"-no.covariates_genes_chr-",chr,"_peak.marker-",peaks$marker[i],"_lod.drop-1.5_5.batches_mis.csv"), quote=F)

  rownames(genesgss) <- NULL
  genesgss$strand_old = genesgss$strand
  genesgss$strand[genesgss$strand=="+"] <- "positive"
  genesgss$strand[genesgss$strand=="-"] <- "negative"

  #genesgss <- 
  #table <- 
  #genesgss[,c("chr","type","start","stop","strand","ID","Name","Dbxref","gene_id","mgi_type","description")] %>%
  #kable(escape = F,align = c("ccccccccccc")) %>%
  #kable_styling("striped", full_width = T) #%>% 
  #cat #%>%
  #column_spec(1, bold=TRUE)
#
  #print(kable(genesgss[,c("chr","type","start","stop","strand","ID","Name","Dbxref","gene_id","mgi_type","description")], escape = F,align = c("ccccccccccc")))

  print(kable(genesgss[,c("chr","type","start","stop","strand","ID","Name","Dbxref","gene_id","mgi_type","description")], "html") %>% kable_styling("striped", full_width = T))

  #table
  

}

} else {
  print(paste0("There are no peaks that have a LOD that reaches suggestive (p<0.1) level of ",summary(operm,alpha=0.1)$A, " [autosomes]/",summary(operm,alpha=0.1)$X, " [x-chromosome]"))
}

[1] “There are no peaks that have a LOD that reaches suggestive (p<0.1) level of 3.42226766678485 [autosomes]/3.65143262837961 [x-chromosome]”

Additive covariates

Significance thresholds

operm <- scan1perm(pr.qc, covars["rz.age"], model="normal", addcovar=addcovar, n_perm=10, perm_Xsp=TRUE, chr_lengths=chr_lengths(gm$gmap))

summary_table<-data.frame(unclass(summary(operm, alpha=c(0.01,  0.05, 0.1))))
names(summary_table) <- c("autosomes","X")
summary_table$significance.level <- rownames(summary_table)

rownames(summary_table) <- NULL

summary_table[c(3,1:2)] %>%
  kable(escape = F,align = c("ccc")) %>%
  kable_styling("striped", full_width = T) %>%
  column_spec(1, bold=TRUE)

significance.level	autosomes	X
0.01	4.081691	5.959101
0.05	3.991521	5.500427
0.1	3.878528	4.900624

Genome-wide scan

plot_lod<-function(out,map){
  for (i in 1:dim(out)[2]){
#par(mar=c(5.1, 6.1, 1.1, 1.1))
    ymx <- maxlod(out) # overall maximum LOD score
    plot(out, map, lodcolumn=i, col="slateblue", ylim=c(0, ymx+0.5))
    #legend("topright", lwd=2, colnames(out)[i], bg="gray90")
    title(main = paste0(colnames(out)[i], " - ICI-Early vs PBS & ICI-Late (with additive covariates) [positions in cM]"))
    add_threshold(map,  summary(operm,alpha=0.1), col = 'purple')
    add_threshold(map,  summary(operm, alpha=0.05), col = 'red')
    add_threshold(map,  summary(operm, alpha=0.01), col = 'blue')

  }
}


print("with no kinship")

[1] “with no kinship”

outfa <- scan1(pr.qc, covars["rz.age"], Xcovar=Xcovar, model="normal", addcovar=addcovar)

plot_lod(outfa,gm$gmap)

print("with normal kinship")

[1] “with normal kinship”

outka <- scan1(pr.qc, covars["rz.age"], Xcovar=Xcovar, model="normal", addcovar=addcovar, kinship=kinship)

plot_lod(outka,gm$gmap)

print("with loco kinship")

[1] “with loco kinship”

outa <- scan1(pr.qc, covars["rz.age"], Xcovar=Xcovar, model="normal", addcovar=addcovar, kinship=K)

plot_lod(outa,gm$gmap)

out = outa

print(paste0("number of samples in analysis = ", as.data.frame(attributes(out)$sample_size)[1,]))

[1] “number of samples in analysis = 138”

LOD peaks

Centimorgan (cM)

peaks<-find_peaks(out, gm$gmap, threshold=summary(operm,alpha=0.1)$A, thresholdX = summary(operm,alpha=0.1)$X, peakdrop=3, drop=1.5)

if(nrow(peaks) >0){
peaks$marker <- find_marker(gm$gmap, chr=peaks$chr,pos=peaks$pos)
names(peaks)[2] <- c("phenotype")
peaks <- peaks[-1]

rownames(peaks) <- NULL
print(kable(peaks, escape = F, align = c("cccccccc"), "html") 
  %>% kable_styling("striped", full_width = T)%>%
  column_spec(1, bold=TRUE)
  )

#plot only peak chromosomes

plot_lod_chr<-function(out,map,chrom){
  for (i in 1:dim(out)[2]){
    #png(filename=paste0("/Users/chenm/Documents/qtl/Jai/",colnames(out)[i],  "_lod.png"))
    
    #par(mar=c(5.1, 6.1, 1.1, 1.1))
    ymx <- maxlod(out) # overall maximum LOD score
    plot(out, map, chr = chrom, lodcolumn=i, col="slateblue", ylim=c(0, ymx+0.5))
    #legend("topright", lwd=2, colnames(out)[i], bg="gray90")
    title(main = paste0(colnames(out)[i], " - chr", chrom, " - ICI-Early vs PBS & ICI-Late (with additive covariates) [positions in cM]"))
    add_threshold(map,  summary(operm,alpha=0.1), col = 'purple')
    add_threshold(map,  summary(operm, alpha=0.05), col = 'red')
    add_threshold(map,  summary(operm, alpha=0.01), col = 'blue')
    #for (j in 1: dim(summary_table)[1]){
    #  abline(h=summary_table[j, i],col="red")
    #  text(x=400, y =summary_table[j, i]+0.12, labels = paste("p=", row.names(summary_table)[j]))
    #}
    #dev.off()

  }
}


for(i in unique(peaks$chr)){
#for (i in 1:nrow(peaks)){
  #plot_lod_chr(out,gm$gmap, peaks$chr[i])
  plot_lod_chr(out,gm$gmap, i)
}

} else {
  print(paste0("There are no peaks that have a LOD that reaches suggestive (p<0.1) level of ",summary(operm,alpha=0.1)$A, " [autosomes]/",summary(operm,alpha=0.1)$X, " [x-chromosome]"))
}

[1] “There are no peaks that have a LOD that reaches suggestive (p<0.1) level of 3.87852828222947 [autosomes]/4.9006239459512 [x-chromosome]”

Megabase (MB)

peaks_mba<-find_peaks(out, gm$pmap, threshold=summary(operm,alpha=0.1)$A, thresholdX = summary(operm,alpha=0.1)$X, peakdrop=3, drop=1.5)

if(nrow(peaks) >0){
peaks_mba$marker <- find_marker(gm$pmap, chr=peaks_mba$chr,pos=peaks_mba$pos)
names(peaks_mba)[2] <- c("phenotype")
peaks_mba <- peaks_mba[-1]

rownames(peaks_mba) <- NULL
print(kable(peaks_mba, escape = F, align = c("cccccccc"), "html") 
  %>% kable_styling("striped", full_width = T)%>%
  column_spec(1, bold=TRUE)
  )

plot_lod_chr_mb<-function(out,map,chrom){
  for (i in 1:dim(out)[2]){
    #png(filename=paste0("/Users/chenm/Documents/qtl/Jai/",colnames(out)[i],  "_lod.png"))
    
    #par(mar=c(5.1, 6.1, 1.1, 1.1))
    ymx <- maxlod(out) # overall maximum LOD score
    plot(out, map, chr = chrom, lodcolumn=i, col="slateblue", ylim=c(0, ymx+0.5))
    #legend("topright", lwd=2, colnames(out)[i], bg="gray90")
    title(main = paste0(colnames(out)[i], " - chr", chrom, " - ICI-Early vs PBS & ICI-Late (with additive covariates) [positions in cM]"))
    add_threshold(map,  summary(operm,alpha=0.1), col = 'purple')
    add_threshold(map,  summary(operm, alpha=0.05), col = 'red')
    add_threshold(map,  summary(operm, alpha=0.01), col = 'blue')
    #for (j in 1: dim(summary_table)[1]){
    #  abline(h=summary_table[j, i],col="red")
    #  text(x=400, y =summary_table[j, i]+0.12, labels = paste("p=", row.names(summary_table)[j]))
    #}
    #dev.off()
  }
}

for(i in unique(peaks_mba$chr)){
#for (i in 1:nrow(peaks_mba)){
  #plot_lod_chr_mb(out,gm$pmap, peaks_mba$chr[i])
  plot_lod_chr_mb(out,gm$pmap,i)
}

} else {
  print(paste0("There are no peaks that have a LOD that reaches suggestive (p<0.1) level of ",summary(operm,alpha=0.1)$A, " [autosomes]/",summary(operm,alpha=0.1)$X, " [x-chromosome]"))
}

[1] “There are no peaks that have a LOD that reaches suggestive (p<0.1) level of 3.87852828222947 [autosomes]/4.9006239459512 [x-chromosome]”

QTL effects

For each peak LOD location we give a list of gene

if(nrow(peaks) >0){
for (i in 1:nrow(peaks)){
#for (i in 1:1){
  #Plot 1
  g <- maxmarg(pr.qc, gm$gmap, chr=peaks$chr[i], pos=peaks$pos[i], return_char=TRUE)
  #png(filename=paste0("/Users/chenm/Documents/qtl/Jai/","qtl_effect_", i, ".png"))
  #par(mar=c(4.1, 4.1, 1.5, 0.6))
  plot_pxg(g, covars[,peaks$phenotype[i]], ylab=peaks$phenotype[i], sort=FALSE)
  title(main = paste0("chr: ", chr=peaks$chr[i],"; pos: ", peaks$pos[i], "cM /",peaks_mba$pos[i],"MB\n(",peaks$phenotype[i]," )"), line=0.2)
  ##dev.off()

  chr = peaks$chr[i]

# Plot 2
  pr_sub <- pull_genoprobint(pr.qc, gm$gmap, chr, c(peaks$ci_lo[i], peaks$ci_hi[i]))
  #coeff <- scan1coef(pr[,chr], cross$pheno[,peaks$lodcolumn[i]], addcovar = addcovar)
  #coeff <- scan1coef(pr[,chr], cross$pheno[,peaks$lodcolumn[i]], Xcovar=Xcovar)
  #coeff <- scan1coef(pr.qc[,chr], gm$covar[peaks$lodcolumn[i]], model="binary")
  #coeff_sub <- scan1coef(pr_sub[,chr], gm$covar[peaks$lodcolumn[i]], model="binary")
  blup <- scan1blup(pr.qc[,chr], covars[peaks$phenotype[i]])
  blup_sub <- scan1blup(pr_sub[,chr], covars[peaks$phenotype[i]])

  write.csv(as.data.frame(blup_sub), paste0("data/ici-early.vs.pbs.ici-late_",peaks$phenotype[i],"-additive.covariates_blup_sub_chr-",chr,"_peak.marker-",peaks$marker[i],"_lod.drop-1.5_5.batches_mis.csv"), quote=F)

  #plot_coef(coeff, 
  #     gm$gmap, columns=1:2,
  #     bgcolor="gray95", legend="bottomleft", 
  #     main = paste("chr", chr=peaks$chr[i],"; pos: ", peaks$pos[i], "cM /",peaks_mba$pos[i],"MB\n(",peaks$lodcolumn[i]," [scan1coeff; positions in cM] )")
  #     )

  #plot_coef(coeff_sub, 
  #     gm$gmap, columns=1:2,
  #     bgcolor="gray95", legend="bottomleft", 
  #     main = paste("chr", chr=peaks$chr[i],"; pos: ", peaks$pos[i], "cM /",peaks_mba$pos[i],"MB\n(",peaks$lodcolumn[i],"; 1.5 LOD drop interval [scan1coeff; positions in cM] ) ")
  #     )


  plot_coef(blup, 
       gm$gmap, columns=1:2,
       bgcolor="gray95", legend="bottomleft", 
       main = paste0("chr: ", chr=peaks$chr[i],"; pos: ", peaks$pos[i], "cM /",peaks_mba$pos[i],"MB\n(",peaks$phenotype[i]," [scan1blup; positions in cM] )")
       )

  plot_coef(blup_sub, 
       gm$gmap, columns=1:2,
       bgcolor="gray95", legend="bottomleft", 
       main = paste0("chr: ", chr=peaks$chr[i],"; pos: ", peaks$pos[i], "cM /",peaks_mba$pos[i],"MB\n(",peaks$phenotype[i],"; 1.5 LOD drop interval [scan1blup; positions in cM] )")
       )


 # Plot 3
  #c2effB <- scan1coef(pr.qc[,chr], gm$covar[peaks$lodcolumn[i]], model="binary", contrasts=cbind(a=c(-1, 0), d=c(0, -1)))
  #c2effBb <- scan1blup(pr.qc[,chr], gm$covar[peaks$lodcolumn[i]], contrasts=cbind(a=c(-1, 0), d=c(0, -1)))
  ##c2effB <- scan1coef(pr[,chr], cross$pheno[,peaks$lodcolumn[i]], addcovar = addcovar, contrasts=cbind(mu=c(1,1,1), a=c(-1, 0, 1), d=c(0, 1, 0)))
  ##c2effB <- scan1coef(pr[,chr], cross$pheno[,peaks$lodcolumn[i]],Xcovar=Xcovar, contrasts=cbind(mu=c(1,1,1), a=c(-1, 0, 1), d=c(0, 1, 0)))
  #plot(c2effB, gm$gmap[chr], columns=1:2,
  #     bgcolor="gray95", legend="bottomleft", 
  #     main = paste("chr", chr=peaks$chr[i], "pos", peaks$pos[i], "(",peaks$lodcolumn[i],")")
  #     )
  #plot(c2effBb, gm$gmap[chr], columns=1:2,
  #     bgcolor="gray95", legend="bottomleft", 
  #     main = paste("chr", chr=peaks$chr[i], "pos", peaks$pos[i], "(",peaks$lodcolumn[i],")")
  #     )
  ##last_coef <- unclass(c2effB)[nrow(c2effB),2:3] # last two coefficients
  ##for(t in seq(along=last_coef))
  ##  axis(side=4, at=last_coef[t], names(last_coef)[t], tick=FALSE)


  #Table 1
  chr = peaks_mba$chr[i]
  start=as.numeric(peaks_mba$ci_lo[i])
  end=as.numeric(peaks_mba$ci_hi[i])

  genesgss = query_genes(chr, start, end)

  write.csv(genesgss, file=paste0("data/ici-early.vs.pbs.ici-late_",peaks$phenotype[i],"-additive.covariates_genes_chr-",chr,"_peak.marker-",peaks$marker[i],"_lod.drop-1.5_5.batches_mis.csv"), quote=F)

  rownames(genesgss) <- NULL
  genesgss$strand_old = genesgss$strand
  genesgss$strand[genesgss$strand=="+"] <- "positive"
  genesgss$strand[genesgss$strand=="-"] <- "negative"

  #genesgss <- 
  #table <- 
  #genesgss[,c("chr","type","start","stop","strand","ID","Name","Dbxref","gene_id","mgi_type","description")] %>%
  #kable(escape = F,align = c("ccccccccccc")) %>%
  #kable_styling("striped", full_width = T) #%>% 
  #cat #%>%
  #column_spec(1, bold=TRUE)
#
  #print(kable(genesgss[,c("chr","type","start","stop","strand","ID","Name","Dbxref","gene_id","mgi_type","description")], escape = F,align = c("ccccccccccc")))

  print(kable(genesgss[,c("chr","type","start","stop","strand","ID","Name","Dbxref","gene_id","mgi_type","description")], "html") %>% kable_styling("striped", full_width = T))

  #table
  

}
} else {
  print(paste0("There are no peaks that have a LOD that reaches suggestive (p<0.1) level of ",summary(operm,alpha=0.1)$A, " [autosomes]/",summary(operm,alpha=0.1)$X, " [x-chromosome]"))
}

[1] “There are no peaks that have a LOD that reaches suggestive (p<0.1) level of 3.87852828222947 [autosomes]/4.9006239459512 [x-chromosome]”

Interactive term

Significance thresholds

operm <- scan1perm(pr.qc, covars["rz.age"], model="normal", addcovar=addcovar, intcovar=addcovar, n_perm=10, perm_Xsp=TRUE, chr_lengths=chr_lengths(gm$gmap))

summary_table<-data.frame(unclass(summary(operm, alpha=c(0.01,  0.05, 0.1))))
names(summary_table) <- c("autosomes","X")
summary_table$significance.level <- rownames(summary_table)

rownames(summary_table) <- NULL

summary_table[c(3,1:2)] %>%
  kable(escape = F,align = c("ccc")) %>%
  kable_styling("striped", full_width = T) %>%
  column_spec(1, bold=TRUE)

significance.level	autosomes	X
0.01	4.348406	4.290610
0.05	4.184643	4.147244
0.1	3.979431	3.959766

Genome-wide scan

plot_lod<-function(out,map){
  for (i in 1:dim(out)[2]){
#par(mar=c(5.1, 6.1, 1.1, 1.1))
    ymx <- maxlod(out) # overall maximum LOD score
    plot(out, map, lodcolumn=i, col="slateblue", ylim=c(0, ymx+0.5))
    #legend("topright", lwd=2, colnames(out)[i], bg="gray90")
    title(main = paste0(colnames(out)[i], " - ICI-Early vs PBS & ICI-Late (with interactive covariate) [positions in cM]"))
    add_threshold(map,  summary(operm,alpha=0.1), col = 'purple')
    add_threshold(map,  summary(operm, alpha=0.05), col = 'red')
    add_threshold(map,  summary(operm, alpha=0.01), col = 'blue')

  }
}


print("with no kinship")

[1] “with no kinship”

outfi <- scan1(pr.qc, covars["rz.age"], Xcovar=Xcovar, model="normal", addcovar=addcovar, intcovar=addcovar)

plot_lod(outfi,gm$gmap)

outf.new <- outfi-outfa

plot_lod(outf.new,gm$gmap)

print("with normal kinship")

[1] “with normal kinship”

outki <- scan1(pr.qc, covars["rz.age"], Xcovar=Xcovar, model="normal", addcovar=addcovar, intcovar=addcovar, kinship=kinship)

plot_lod(outki,gm$gmap)

outk.new <- outki-outka

plot_lod(outk.new,gm$gmap)

print("with loco kinship")

[1] “with loco kinship”

outi <- scan1(pr.qc, covars["rz.age"], Xcovar=Xcovar, model="normal", addcovar=addcovar, intcovar=addcovar, kinship=K)

plot_lod(outi,gm$gmap)

outi.new <- outi-outa

plot_lod(outi.new,gm$gmap)

out = outi.new


print(paste0("number of samples in analysis = ", as.data.frame(attributes(out)$sample_size)[1,]))

[1] “number of samples in analysis = 138”

LOD peaks

Centimorgan (cM)

peaks<-find_peaks(out, gm$gmap, threshold=summary(operm,alpha=0.1)$A, thresholdX = summary(operm,alpha=0.1)$X, peakdrop=3, drop=1.5)

if(nrow(peaks) >0){
peaks$marker <- find_marker(gm$gmap, chr=peaks$chr,pos=peaks$pos)
names(peaks)[2] <- c("phenotype")
peaks <- peaks[-1]

rownames(peaks) <- NULL
print(kable(peaks, escape = F, align = c("cccccccc"), "html") 
  %>% kable_styling("striped", full_width = T)%>%
  column_spec(1, bold=TRUE)
  )

#plot only peak chromosomes

plot_lod_chr<-function(out,map,chrom){
  for (i in 1:dim(out)[2]){
    #png(filename=paste0("/Users/chenm/Documents/qtl/Jai/",colnames(out)[i],  "_lod.png"))
    
    #par(mar=c(5.1, 6.1, 1.1, 1.1))
    ymx <- maxlod(out) # overall maximum LOD score
    plot(out, map, chr = chrom, lodcolumn=i, col="slateblue", ylim=c(0, ymx+0.5))
    #legend("topright", lwd=2, colnames(out)[i], bg="gray90")
    title(main = paste0(colnames(out)[i], " - chr", chrom, " - ICI-Early vs PBS & ICI-Late (with interactive covariate) [positions in cM]"))
    add_threshold(map,  summary(operm,alpha=0.1), col = 'purple')
    add_threshold(map,  summary(operm, alpha=0.05), col = 'red')
    add_threshold(map,  summary(operm, alpha=0.01), col = 'blue')
    #for (j in 1: dim(summary_table)[1]){
    #  abline(h=summary_table[j, i],col="red")
    #  text(x=400, y =summary_table[j, i]+0.12, labels = paste("p=", row.names(summary_table)[j]))
    #}
    #dev.off()

  }
}


for(i in unique(peaks$chr)){
#for (i in 1:nrow(peaks)){
  #plot_lod_chr(out,gm$gmap, peaks$chr[i])
  plot_lod_chr(out,gm$gmap, i)
}

} else {
  print(paste0("There are no peaks that have a LOD that reaches suggestive (p<0.1) level of ",summary(operm,alpha=0.1)$A, " [autosomes]/",summary(operm,alpha=0.1)$X, " [x-chromosome]"))
}

[1] “There are no peaks that have a LOD that reaches suggestive (p<0.1) level of 3.97943128824132 [autosomes]/3.95976624526595 [x-chromosome]”

Megabase (MB)

peaks_mba<-find_peaks(out, gm$pmap, threshold=summary(operm,alpha=0.1)$A, thresholdX = summary(operm,alpha=0.1)$X, peakdrop=3, drop=1.5)

if(nrow(peaks) >0){
peaks_mba$marker <- find_marker(gm$pmap, chr=peaks_mba$chr,pos=peaks_mba$pos)
names(peaks_mba)[2] <- c("phenotype")
peaks_mba <- peaks_mba[-1]

rownames(peaks_mba) <- NULL
print(kable(peaks_mba, escape = F, align = c("cccccccc"), "html") 
  %>% kable_styling("striped", full_width = T)%>%
  column_spec(1, bold=TRUE)
  )

plot_lod_chr_mb<-function(out,map,chrom){
  for (i in 1:dim(out)[2]){
    #png(filename=paste0("/Users/chenm/Documents/qtl/Jai/",colnames(out)[i],  "_lod.png"))
    
    #par(mar=c(5.1, 6.1, 1.1, 1.1))
    ymx <- maxlod(out) # overall maximum LOD score
    plot(out, map, chr = chrom, lodcolumn=i, col="slateblue", ylim=c(0, ymx+0.5))
    #legend("topright", lwd=2, colnames(out)[i], bg="gray90")
    title(main = paste0(colnames(out)[i], " - chr", chrom, " - ICI-Early vs PBS & ICI-Late (with interactive covariate) [positions in cM]"))
    add_threshold(map,  summary(operm,alpha=0.1), col = 'purple')
    add_threshold(map,  summary(operm, alpha=0.05), col = 'red')
    add_threshold(map,  summary(operm, alpha=0.01), col = 'blue')
    #for (j in 1: dim(summary_table)[1]){
    #  abline(h=summary_table[j, i],col="red")
    #  text(x=400, y =summary_table[j, i]+0.12, labels = paste("p=", row.names(summary_table)[j]))
    #}
    #dev.off()
  }
}

for(i in unique(peaks_mba$chr)){
#for (i in 1:nrow(peaks_mba)){
  #plot_lod_chr_mb(out,gm$pmap, peaks_mba$chr[i])
  plot_lod_chr_mb(out,gm$pmap,i)
}

} else {
  print(paste0("There are no peaks that have a LOD that reaches suggestive (p<0.1) level of ",summary(operm,alpha=0.1)$A, " [autosomes]/",summary(operm,alpha=0.1)$X, " [x-chromosome]"))
}

[1] “There are no peaks that have a LOD that reaches suggestive (p<0.1) level of 3.97943128824132 [autosomes]/3.95976624526595 [x-chromosome]”

QTL effects

For each peak LOD location we give a list of gene

if(nrow(peaks) >0){
for (i in 1:nrow(peaks)){
#for (i in 1:1){
  #Plot 1
  g <- maxmarg(pr.qc, gm$gmap, chr=peaks$chr[i], pos=peaks$pos[i], return_char=TRUE)
  #png(filename=paste0("/Users/chenm/Documents/qtl/Jai/","qtl_effect_", i, ".png"))
  #par(mar=c(4.1, 4.1, 1.5, 0.6))
  plot_pxg(g, covars[,peaks$phenotype[i]], ylab=peaks$phenotype[i], sort=FALSE)
  title(main = paste0("chr: ", chr=peaks$chr[i],"; pos: ", peaks$pos[i], "cM /",peaks_mba$pos[i],"MB\n(",peaks$phenotype[i]," )"), line=0.2)
  ##dev.off()

  chr = peaks$chr[i]

# Plot 2
  pr_sub <- pull_genoprobint(pr.qc, gm$gmap, chr, c(peaks$ci_lo[i], peaks$ci_hi[i]))
  #coeff <- scan1coef(pr[,chr], cross$pheno[,peaks$lodcolumn[i]], addcovar = addcovar)
  #coeff <- scan1coef(pr[,chr], cross$pheno[,peaks$lodcolumn[i]], Xcovar=Xcovar)
  #coeff <- scan1coef(pr.qc[,chr], gm$covar[peaks$lodcolumn[i]], model="binary")
  #coeff_sub <- scan1coef(pr_sub[,chr], gm$covar[peaks$lodcolumn[i]], model="binary")
  blup <- scan1blup(pr.qc[,chr], covars[peaks$phenotype[i]])
  blup_sub <- scan1blup(pr_sub[,chr], covars[peaks$phenotype[i]])

  write.csv(as.data.frame(blup_sub), paste0("data/ici-early.vs.pbs.ici-late_",peaks$phenotype[i],"-interactive.covariate_blup_sub_chr-",chr,"_peak.marker-",peaks$marker[i],"_lod.drop-1.5_5.batches_mis.csv"), quote=F)

  #plot_coef(coeff, 
  #     gm$gmap, columns=1:2,
  #     bgcolor="gray95", legend="bottomleft", 
  #     main = paste("chr", chr=peaks$chr[i],"; pos: ", peaks$pos[i], "cM /",peaks_mba$pos[i],"MB\n(",peaks$lodcolumn[i]," [scan1coeff; positions in cM] )")
  #     )

  #plot_coef(coeff_sub, 
  #     gm$gmap, columns=1:2,
  #     bgcolor="gray95", legend="bottomleft", 
  #     main = paste("chr", chr=peaks$chr[i],"; pos: ", peaks$pos[i], "cM /",peaks_mba$pos[i],"MB\n(",peaks$lodcolumn[i],"; 1.5 LOD drop interval [scan1coeff; positions in cM] ) ")
  #     )


  plot_coef(blup, 
       gm$gmap, columns=1:2,
       bgcolor="gray95", legend="bottomleft", 
       main = paste0("chr: ", chr=peaks$chr[i],"; pos: ", peaks$pos[i], "cM /",peaks_mba$pos[i],"MB\n(",peaks$phenotype[i]," [scan1blup; positions in cM] )")
       )

  plot_coef(blup_sub, 
       gm$gmap, columns=1:2,
       bgcolor="gray95", legend="bottomleft", 
       main = paste0("chr: ", chr=peaks$chr[i],"; pos: ", peaks$pos[i], "cM /",peaks_mba$pos[i],"MB\n(",peaks$phenotype[i],"; 1.5 LOD drop interval [scan1blup; positions in cM] )")
       )


 # Plot 3
  #c2effB <- scan1coef(pr.qc[,chr], gm$covar[peaks$lodcolumn[i]], model="binary", contrasts=cbind(a=c(-1, 0), d=c(0, -1)))
  #c2effBb <- scan1blup(pr.qc[,chr], gm$covar[peaks$lodcolumn[i]], contrasts=cbind(a=c(-1, 0), d=c(0, -1)))
  ##c2effB <- scan1coef(pr[,chr], cross$pheno[,peaks$lodcolumn[i]], addcovar = addcovar, contrasts=cbind(mu=c(1,1,1), a=c(-1, 0, 1), d=c(0, 1, 0)))
  ##c2effB <- scan1coef(pr[,chr], cross$pheno[,peaks$lodcolumn[i]],Xcovar=Xcovar, contrasts=cbind(mu=c(1,1,1), a=c(-1, 0, 1), d=c(0, 1, 0)))
  #plot(c2effB, gm$gmap[chr], columns=1:2,
  #     bgcolor="gray95", legend="bottomleft", 
  #     main = paste("chr", chr=peaks$chr[i], "pos", peaks$pos[i], "(",peaks$lodcolumn[i],")")
  #     )
  #plot(c2effBb, gm$gmap[chr], columns=1:2,
  #     bgcolor="gray95", legend="bottomleft", 
  #     main = paste("chr", chr=peaks$chr[i], "pos", peaks$pos[i], "(",peaks$lodcolumn[i],")")
  #     )
  ##last_coef <- unclass(c2effB)[nrow(c2effB),2:3] # last two coefficients
  ##for(t in seq(along=last_coef))
  ##  axis(side=4, at=last_coef[t], names(last_coef)[t], tick=FALSE)


  #Table 1
  chr = peaks_mba$chr[i]
  start=as.numeric(peaks_mba$ci_lo[i])
  end=as.numeric(peaks_mba$ci_hi[i])

  genesgss = query_genes(chr, start, end)

  write.csv(genesgss, file=paste0("data/ici-early.vs.pbs.ici-late_",peaks$phenotype[i],"-interactive.covariate_genes_chr-",chr,"_peak.marker-",peaks$marker[i],"_lod.drop-1.5_5.batches_mis.csv"), quote=F)

  rownames(genesgss) <- NULL
  genesgss$strand_old = genesgss$strand
  genesgss$strand[genesgss$strand=="+"] <- "positive"
  genesgss$strand[genesgss$strand=="-"] <- "negative"

  #genesgss <- 
  #table <- 
  #genesgss[,c("chr","type","start","stop","strand","ID","Name","Dbxref","gene_id","mgi_type","description")] %>%
  #kable(escape = F,align = c("ccccccccccc")) %>%
  #kable_styling("striped", full_width = T) #%>% 
  #cat #%>%
  #column_spec(1, bold=TRUE)
#
  #print(kable(genesgss[,c("chr","type","start","stop","strand","ID","Name","Dbxref","gene_id","mgi_type","description")], escape = F,align = c("ccccccccccc")))

  print(kable(genesgss[,c("chr","type","start","stop","strand","ID","Name","Dbxref","gene_id","mgi_type","description")], "html") %>% kable_styling("striped", full_width = T))

  #table
  

}
} else {
  print(paste0("There are no peaks that have a LOD that reaches suggestive (p<0.1) level of ",summary(operm,alpha=0.1)$A, " [autosomes]/",summary(operm,alpha=0.1)$X, " [x-chromosome]"))
}

[1] “There are no peaks that have a LOD that reaches suggestive (p<0.1) level of 3.97943128824132 [autosomes]/3.95976624526595 [x-chromosome]”

Session information

R version 3.6.2 (2019-12-12)
Platform: x86_64-apple-darwin15.6.0 (64-bit)
Running under: macOS Catalina 10.15.7

Matrix products: default
BLAS:   /Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libRblas.0.dylib
LAPACK: /Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libRlapack.dylib

locale:
[1] en_AU.UTF-8/en_AU.UTF-8/en_AU.UTF-8/C/en_AU.UTF-8/en_AU.UTF-8

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
 [1] abind_1.4-5       qtl2_0.22         reshape2_1.4.4    ggplot2_3.3.5    
 [5] tibble_3.1.2      psych_2.0.7       readxl_1.3.1      cluster_2.1.0    
 [9] dplyr_1.0.8       optparse_1.6.6    rhdf5_2.28.1      mclust_5.4.6     
[13] tidyr_1.0.2       data.table_1.14.0 knitr_1.33        kableExtra_1.1.0 
[17] workflowr_1.6.2  

loaded via a namespace (and not attached):
 [1] httr_1.4.1        bit64_4.0.5       viridisLite_0.4.0 assertthat_0.2.1 
 [5] highr_0.9         blob_1.2.1        cellranger_1.1.0  yaml_2.2.1       
 [9] pillar_1.6.1      RSQLite_2.2.7     backports_1.2.1   lattice_0.20-38  
[13] glue_1.4.2        digest_0.6.27     promises_1.1.0    rvest_0.3.5      
[17] colorspace_2.0-2  htmltools_0.5.1.1 httpuv_1.5.2      plyr_1.8.6       
[21] pkgconfig_2.0.3   purrr_0.3.4       scales_1.1.1      webshot_0.5.2    
[25] getopt_1.20.3     later_1.0.0       git2r_0.26.1      generics_0.0.2   
[29] ellipsis_0.3.2    cachem_1.0.5      withr_2.4.2       cli_3.0.0        
[33] mnormt_1.5-7      magrittr_2.0.1    crayon_1.4.1      memoise_2.0.0    
[37] evaluate_0.14     fs_1.4.1          fansi_0.5.0       nlme_3.1-142     
[41] xml2_1.3.1        tools_3.6.2       hms_0.5.3         lifecycle_1.0.1  
[45] stringr_1.4.0     Rhdf5lib_1.6.3    munsell_0.5.0     compiler_3.6.2   
[49] rlang_1.0.2       grid_3.6.2        rstudioapi_0.13   rmarkdown_2.1    
[53] gtable_0.3.0      DBI_1.1.1         R6_2.5.0          fastmap_1.1.0    
[57] bit_4.0.4         utf8_1.2.1        rprojroot_1.3-2   readr_1.3.1      
[61] stringi_1.7.2     parallel_3.6.2    Rcpp_1.0.7        vctrs_0.3.8      
[65] tidyselect_1.1.2  xfun_0.24