Package index

All functions

FgseaEnrichmentPlot-class FgseaEnrichmentPlot initialize,FgseaEnrichmentPlot-method .cacheCommonInfo,FgseaEnrichmentPlot-method .createObservers,FgseaEnrichmentPlot-method .defineDataInterface,FgseaEnrichmentPlot-method .defineInterface,FgseaEnrichmentPlot-method .defineOutput,FgseaEnrichmentPlot-method .fullName,FgseaEnrichmentPlot-method .generateOutput,FgseaEnrichmentPlot-method .isBrushable,FgseaEnrichmentPlot-method .multiSelectionActive,FgseaEnrichmentPlot-method .multiSelectionCommands,FgseaEnrichmentPlot-method .multiSelectionDimension,FgseaEnrichmentPlot-method .panelColor,FgseaEnrichmentPlot-method .refineParameters,FgseaEnrichmentPlot-method .renderOutput,FgseaEnrichmentPlot-method .showSelectionDetails,FgseaEnrichmentPlot-method

The FgseaEnrichmentPlot class

PathwaysTable-class PathwaysTable initialize,PathwaysTable-method .cacheCommonInfo,PathwaysTable-method .createObservers,PathwaysTable-method .defineDataInterface,PathwaysTable-method .defineInterface,PathwaysTable-method .fullName,PathwaysTable-method .generateTable,PathwaysTable-method .multiSelectionActive,PathwaysTable-method .multiSelectionCommands,PathwaysTable-method .multiSelectionDimension,PathwaysTable-method .panelColor,PathwaysTable-method .refineParameters,PathwaysTable-method .showSelectionDetails,PathwaysTable-method

The PathwaysTable class

iSEEfgseaResults-class iSEEfgseaResults embedPathwaysResults,iSEEfgseaResults-method featuresStats,iSEEfgseaResults-method pathwaysList,iSEEfgseaResults-method pathwayType,iSEEfgseaResults-method

The iSEEfgseaResults class

iSEEpathwaysResults-class iSEEpathwaysResults show,iSEEpathwaysResults-method

The iSEEpathwaysResults class

pathway-generics featuresStats pathwayType pathwaysList

Generics for Pathway Analysis Results

pathwaysResultsNames() pathwaysResults()

Extract contrast results embedded in a SummarizedExperiment object

simulateExampleData()

Simulate Example Data

embedPathwaysResults() embedPathwaysResultsMethods

Generics for Embbedding Pathway Analysis Results into a SummarizedExperiment Object