Uses of Class
org.monarchinitiative.lirical.core.output.OutputOptions

Packages that use OutputOptions

Package	Description
org.monarchinitiative.lirical.cli.cmd	Commands to run LIRICAL in different configurations.
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.

Uses of OutputOptions in org.monarchinitiative.lirical.cli.cmd

Methods in org.monarchinitiative.lirical.cli.cmd that return OutputOptions

Modifier and Type	Method	Description
protected OutputOptions	OutputCommand.createOutputOptions(String prefix)

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

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

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 OutputOptions in org.monarchinitiative.lirical.io.output

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

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)

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

Modifier	Constructor	Description
protected	LiricalTemplate(org.monarchinitiative.phenol.ontology.data.MinimalOntology hpo, AnalysisData analysisData, AnalysisResultsMetadata resultsMetadata, OutputOptions outputOptions)