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| Neogen_Sample_ID | Missing | AA | AC | AG | AT | CC | CG | GC | GG | TA | TC | TG | TT | Total_Genotyped | Percent_Genotyped | MURGIGV01_SNP.Count | cr |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| D928-ICI-Myo | 5355 | 29098 | 1897 | 7859 | 11 | 30153 | 8 | 6 | 30454 | 6 | 7741 | 1792 | 28879 | 137904 | 96.26% | 143259 | 0.962620149519402 |
| D266-PBS-EOI | 5327 | 28883 | 2078 | 8242 | 6 | 29861 | 5 | 4 | 30129 | 1 | 8064 | 1939 | 28720 | 137932 | 96.28% | 143259 | 0.962815599717993 |
| D947-PBS-EOI | 5312 | 29644 | 1725 | 6939 | 6 | 30660 | 6 | 6 | 30960 | 1 | 6856 | 1759 | 29385 | 137947 | 96.29% | 143259 | 0.962920305181524 |
| D268-PBS-EOI | 5321 | 30037 | 1520 | 6316 | 3 | 31105 | 9 | 2 | 31409 | 6 | 6238 | 1504 | 29789 | 137938 | 96.29% | 143259 | 0.962857481903406 |
| D948-PBS-EOI | 5293 | 30376 | 1443 | 5815 | 3 | 31312 | 3 | 5 | 31702 | 2 | 5744 | 1397 | 30164 | 137966 | 96.31% | 143259 | 0.963052932101997 |
| D271-PBS-EOI | 5256 | 28019 | 2301 | 9672 | 7 | 29157 | 8 | 5 | 29314 | 4 | 9325 | 2248 | 27943 | 138003 | 96.33% | 143259 | 0.963311205578707 |
| D1706-ICI-Myo | 5290 | 30287 | 1417 | 5824 | 6 | 31406 | 5 | 4 | 31720 | 2 | 5721 | 1447 | 30130 | 137969 | 96.31% | 143259 | 0.963073873194703 |
| D307-ICI-EOI | 5282 | 29700 | 1702 | 6816 | 11 | 30733 | 9 | 8 | 31091 | 3 | 6694 | 1599 | 29611 | 137977 | 96.31% | 143259 | 0.963129716108587 |
| D1708-ICI-Myo | 5245 | 30442 | 1400 | 5737 | 8 | 31452 | 6 | 4 | 31734 | 0 | 5566 | 1361 | 30304 | 138014 | 96.34% | 143259 | 0.963387989585297 |
| D308-ICI-EOI | 5263 | 30105 | 1568 | 6195 | 6 | 31030 | 4 | 5 | 31430 | 3 | 6218 | 1490 | 29942 | 137996 | 96.33% | 143259 | 0.963262343029059 |
| D1737-ICI-Myo | 5233 | 30084 | 1552 | 6305 | 7 | 31050 | 9 | 9 | 31393 | 6 | 6262 | 1462 | 29887 | 138026 | 96.35% | 143259 | 0.963471753956121 |
| D322-PBS-EOI | 5217 | 29406 | 1750 | 7424 | 9 | 30458 | 4 | 4 | 30733 | 2 | 7286 | 1720 | 29246 | 138042 | 96.36% | 143259 | 0.963583439783888 |
| D1731-ICI-Myo | 5338 | 30217 | 1505 | 6000 | 5 | 31143 | 6 | 7 | 31549 | 2 | 5968 | 1491 | 30028 | 137921 | 96.27% | 143259 | 0.962738815711404 |
| D1739-ICI-Myo | 5376 | 31119 | 1123 | 4567 | 5 | 32071 | 4 | 4 | 32416 | 1 | 4533 | 1071 | 30969 | 137883 | 96.25% | 143259 | 0.962473561870458 |
| D1771-ICI-Myo | 5329 | 29744 | 1668 | 6679 | 6 | 30844 | 5 | 4 | 31221 | 4 | 6581 | 1536 | 29638 | 137930 | 96.28% | 143259 | 0.962801638989522 |
| D1774-ICI-Myo | 5330 | 30321 | 1403 | 5918 | 7 | 31382 | 5 | 3 | 31596 | 1 | 5774 | 1434 | 30085 | 137929 | 96.28% | 143259 | 0.962794658625287 |
| 7451-ICI-EOI | 5299 | 30207 | 1587 | 6126 | 3 | 31139 | 4 | 5 | 31450 | 3 | 5934 | 1453 | 30049 | 137960 | 96.30% | 143259 | 0.963011049916585 |
| D249-PBS-EOI | 5264 | 29060 | 1924 | 7934 | 9 | 30101 | 11 | 4 | 30367 | 4 | 7782 | 1862 | 28937 | 137995 | 96.33% | 143259 | 0.963031991009291 |
| D249-PBS-EOI | 5264 | 29060 | 1924 | 7934 | 9 | 30101 | 11 | 4 | 30367 | 4 | 7782 | 1862 | 28937 | 137995 | 96.33% | 143259 | 0.963255362664824 |
| D249-PBS-EOI | 5264 | 29060 | 1924 | 7934 | 9 | 30101 | 11 | 4 | 30367 | 4 | 7782 | 1862 | 28937 | 137995 | 96.33% | 143259 | 0.963255362664824 |
| D249-PBS-EOI | 5264 | 29060 | 1924 | 7934 | 9 | 30101 | 11 | 4 | 30367 | 4 | 7782 | 1862 | 28937 | 137995 | 96.33% | 143259 | 0.963031991009291 |
| Neogen_Sample_ID | Provided.Sex | Inferred.Sex |
|---|---|---|
| D928-ICI-Myo | F | F |
| D266-PBS-EOI | F | F |
| D947-PBS-EOI | F | F |
| D268-PBS-EOI | F | F |
| D948-PBS-EOI | F | F |
| D271-PBS-EOI | F | F |
| D1706-ICI-Myo | F | F |
| D307-ICI-EOI | F | F |
| D1708-ICI-Myo | F | F |
| D308-ICI-EOI | F | F |
| D1737-ICI-Myo | F | F |
| D322-PBS-EOI | F | F |
| D1731-ICI-Myo | F | F |
| D1739-ICI-Myo | F | F |
| D1771-ICI-Myo | F | F |
| D1774-ICI-Myo | F | F |
| 7451-ICI-EOI | F | F |
| D249-PBS-EOI | F | F |
| D249-PBS-EOI | F | F |
| D249-PBS-EOI | F | F |
| D249-PBS-EOI | F | F |
| Neogen_Sample_ID | sex_pheno | Inferred.Sex_pheno | Myocarditis.Status | age.of.clinical.phenotype..weeks. |
|---|---|---|---|---|
| D928-ICI-Myo | F | F | YES | – |
| D266-PBS-EOI | F | F | NO | – |
| D947-PBS-EOI | F | F | YES | – |
| D268-PBS-EOI | F | F | NO | – |
| D948-PBS-EOI | F | F | YES | – |
| D271-PBS-EOI | F | F | NO | – |
| D1706-ICI-Myo | F | F | YES | 13 |
| D307-ICI-EOI | F | F | NO | – |
| D1708-ICI-Myo | F | F | YES | 13 |
| D308-ICI-EOI | F | F | NO | – |
| D1737-ICI-Myo | F | F | YES | 13 |
| D322-PBS-EOI | F | F | NO | – |
| D1731-ICI-Myo | F | F | YES | 13 |
| D1739-ICI-Myo | F | F | YES | 13 |
| D1771-ICI-Myo | F | F | YES | 13 |
| D1774-ICI-Myo | F | F | YES | 13 |
| 7451-ICI-EOI | F | F | NO | – |
| D249-PBS-EOI | F | F | NO | – |
| D249-PBS-EOI | F | F | NO | – |
| D249-PBS-EOI | F | F | NO | – |
| D249-PBS-EOI | F | F | NO | – |
| Neogen_Sample_ID | no_pheno | low_call.rate | different_sex |
|---|---|---|---|
R version 4.2.2 (2022-10-31)
Platform: x86_64-apple-darwin17.0 (64-bit)
Running under: macOS Big Sur ... 10.16
Matrix products: default
BLAS: /Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libRblas.0.dylib
LAPACK: /Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libRlapack.dylib
locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] tibble_3.1.8 readxl_1.4.1 cluster_2.1.4 dplyr_1.0.10
[5] optparse_1.7.3 rhdf5_2.40.0 mclust_6.0.0 tidyr_1.2.1
[9] data.table_1.14.6 knitr_1.41 kableExtra_1.3.4 workflowr_1.7.0
loaded via a namespace (and not attached):
[1] tidyselect_1.2.0 xfun_0.35 bslib_0.4.1 purrr_0.3.5
[5] colorspace_2.0-3 vctrs_0.5.1 generics_0.1.3 getopt_1.20.3
[9] htmltools_0.5.3 viridisLite_0.4.1 yaml_2.3.6 utf8_1.2.2
[13] rlang_1.0.6 jquerylib_0.1.4 later_1.3.0 pillar_1.8.1
[17] withr_2.5.0 DBI_1.1.3 glue_1.6.2 lifecycle_1.0.3
[21] stringr_1.5.0 cellranger_1.1.0 munsell_0.5.0 rvest_1.0.3
[25] evaluate_0.18 callr_3.7.3 fastmap_1.1.0 httpuv_1.6.6
[29] ps_1.7.2 fansi_1.0.3 Rcpp_1.0.9 promises_1.2.0.1
[33] scales_1.2.1 cachem_1.0.6 webshot_0.5.4 jsonlite_1.8.4
[37] fs_1.5.2 systemfonts_1.0.4 digest_0.6.30 stringi_1.7.8
[41] processx_3.8.0 getPass_0.2-2 rprojroot_2.0.3 rhdf5filters_1.8.0
[45] cli_3.4.1 tools_4.2.2 magrittr_2.0.3 sass_0.4.4
[49] whisker_0.4.1 pkgconfig_2.0.3 ellipsis_0.3.2 xml2_1.3.3
[53] assertthat_0.2.1 rmarkdown_2.18 svglite_2.1.0 httr_1.4.4
[57] rstudioapi_0.14 Rhdf5lib_1.18.2 R6_2.5.1 git2r_0.30.1
[61] compiler_4.2.2