Ensemble of Gene Set Enrichment Analyses

---

Documentation for package ‘EGSEA’ version 1.26.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

EGSEA-package	Ensemble of Gene Enrichment Analysis (EGSEA)
$-method	The EGSEAResults class
$-method	The GSCollectionIndex class
buildCustomIdx	Functions to create gene set collection indexes for EGSEA
buildCustomIdx,egsea-index	Functions to create gene set collection indexes for EGSEA
buildGeneSetDBIdx	Functions to create gene set collection indexes for EGSEA
buildGeneSetDBIdx,egsea-index	Functions to create gene set collection indexes for EGSEA
buildGMTIdx	Functions to create gene set collection indexes for EGSEA
buildGMTIdx,egsea-index	Functions to create gene set collection indexes for EGSEA
buildIdx	Functions to create gene set collection indexes for EGSEA
buildIdx,egsea-index	Functions to create gene set collection indexes for EGSEA
buildKEGGIdx	Functions to create gene set collection indexes for EGSEA
buildKEGGIdx,egsea-index	Functions to create gene set collection indexes for EGSEA
buildMSigDBIdx	Functions to create gene set collection indexes for EGSEA
buildMSigDBIdx,egsea-index	Functions to create gene set collection indexes for EGSEA
EGSEA	Ensemble of Gene Enrichment Analysis (EGSEA)
egsea	Core functions to perform ensemble of gene set enrichment analysis (EGSEA)
egsea,egsea-main	Core functions to perform ensemble of gene set enrichment analysis (EGSEA)
egsea.base	EGSEA auxiliary functions
egsea.base,egsea-aux	EGSEA auxiliary functions
egsea.cnt	Core functions to perform ensemble of gene set enrichment analysis (EGSEA)
egsea.cnt,egsea-main	Core functions to perform ensemble of gene set enrichment analysis (EGSEA)
egsea.combine	EGSEA auxiliary functions
egsea.combine,egsea-aux	EGSEA auxiliary functions
egsea.logo	EGSEA auxiliary functions
egsea.logo,egsea-aux	EGSEA auxiliary functions
egsea.ma	Core functions to perform ensemble of gene set enrichment analysis (EGSEA)
egsea.ora	Core functions to perform ensemble of gene set enrichment analysis (EGSEA)
egsea.ora,egsea-main	Core functions to perform ensemble of gene set enrichment analysis (EGSEA)
egsea.sort	EGSEA auxiliary functions
egsea.sort,egsea-aux	EGSEA auxiliary functions
EGSEAResults	The EGSEAResults class
EGSEAResults-class	The EGSEAResults class
generateReport	The EGSEAResults class
generateReport-method	The EGSEAResults class
getlimmaResults	The EGSEAResults class
getlimmaResults-method	The EGSEAResults class
getSetByID	The GSCollectionIndex class
getSetByID-method	The GSCollectionIndex class
getSetByName	The GSCollectionIndex class
getSetByName-method	The GSCollectionIndex class
getSetScores	The EGSEAResults class
getSetScores-method	The EGSEAResults class
GSCollectionIndex	The GSCollectionIndex class
GSCollectionIndex-class	The GSCollectionIndex class
limmaTopTable	The EGSEAResults class
limmaTopTable-method	The EGSEAResults class
plotBars	The EGSEAResults class
plotBars-method	The EGSEAResults class
plotGOGraph	The EGSEAResults class
plotGOGraph-method	The EGSEAResults class
plotHeatmap	The EGSEAResults class
plotHeatmap-method	The EGSEAResults class
plotMethods	The EGSEAResults class
plotMethods-method	The EGSEAResults class
plotPathway	The EGSEAResults class
plotPathway-method	The EGSEAResults class
plotSummary	The EGSEAResults class
plotSummary-method	The EGSEAResults class
plotSummaryHeatmap	The EGSEAResults class
plotSummaryHeatmap-method	The EGSEAResults class
show-method	The EGSEAResults class
show-method	The GSCollectionIndex class
showSetByID	The EGSEAResults class
showSetByID-method	The EGSEAResults class
showSetByName	The EGSEAResults class
showSetByName-method	The EGSEAResults class
summary-method	The EGSEAResults class
summary-method	The GSCollectionIndex class
topSets	The EGSEAResults class
topSets-method	The EGSEAResults class