Uses of Interface
org.monarchinitiative.lirical.core.analysis.AnalysisResults

Packages that use AnalysisResults

Package	Description
org.monarchinitiative.lirical.core.analysis	A high-level representation of LIRICAL analysis.
org.monarchinitiative.lirical.core.analysis.impl	Default LIRICAL analysis implementation.
org.monarchinitiative.lirical.core.output	Base data model for writing out the results of LIRICAL analysis.
org.monarchinitiative.lirical.io.output	Classes for writing out LIRICAL analysis results into HTML, TSV, and JSON files.
org.monarchinitiative.lirical.io.output.svg	Classes to create an SVG graphic representing the result of likelihood raio analysis of one HPO Case.

Uses of AnalysisResults in org.monarchinitiative.lirical.core.analysis

Methods in org.monarchinitiative.lirical.core.analysis that return AnalysisResults

Modifier and Type	Method	Description
static AnalysisResults	AnalysisResults.empty()
static AnalysisResults	AnalysisResults.of(List<TestResult> results)
AnalysisResults	LiricalAnalysisRunner.run(AnalysisData analysisData, AnalysisOptions analysisOptions)	Run analysis parametrized by analysisOptions on analysisData.

Uses of AnalysisResults in org.monarchinitiative.lirical.core.analysis.impl

Methods in org.monarchinitiative.lirical.core.analysis.impl that return AnalysisResults

Modifier and Type	Method	Description
AnalysisResults	LiricalAnalysisRunnerImpl.run(AnalysisData data, AnalysisOptions options)

Uses of AnalysisResults in org.monarchinitiative.lirical.core.output

Methods in org.monarchinitiative.lirical.core.output with parameters of type AnalysisResults

Modifier and Type	Method	Description
void	AnalysisResultsWriter.process(AnalysisData analysisData, AnalysisResults analysisResults, AnalysisResultsMetadata metadata, OutputOptions outputOptions)	Write the provided AnalysisData, AnalysisResults and AnalysisResultsMetadata into some OutputFormat as guided by OutputOptions.

Uses of AnalysisResults in org.monarchinitiative.lirical.io.output

Methods in org.monarchinitiative.lirical.io.output with parameters of type AnalysisResults

Modifier and Type	Method	Description
void	JsonAnalysisResultWriter.process(AnalysisData analysisData, AnalysisResults analysisResults, AnalysisResultsMetadata metadata, OutputOptions outputOptions)
void	TemplateBasedAnalysisResultsWriter.process(AnalysisData analysisData, AnalysisResults analysisResults, AnalysisResultsMetadata metadata, OutputOptions options)
static List<SparklinePacket>	SparklinePacket.sparklineFactory(AnalysisResults results, org.monarchinitiative.phenol.annotations.formats.hpo.HpoDiseases diseases, org.monarchinitiative.phenol.ontology.data.MinimalOntology ontology, boolean showDiseasesWithNoDeleteriousVariants, int N)	Factory method for genotype-phenotype analysis.

Uses of AnalysisResults in org.monarchinitiative.lirical.io.output.svg

Methods in org.monarchinitiative.lirical.io.output.svg with parameters of type AnalysisResults

Modifier and Type	Method	Description
String	Sparkline2Svg.getGeneSparklineSvg(AnalysisResults results, org.monarchinitiative.phenol.ontology.data.TermId diseaseId, String gsymbol)

Constructors in org.monarchinitiative.lirical.io.output.svg with parameters of type AnalysisResults

Modifier	Constructor	Description
	Posttest2Svg(AnalysisResults results, org.monarchinitiative.phenol.annotations.formats.hpo.HpoDiseases diseases, double threshold, int totalDetailedToShowText)