phenoTest-package	phenoTest-package
approach	ephenoGetters
approach,epheno-method	epheno-class
barplotSignatures	plots4epheno
barplotSignatures,epheno,character-method	barplotSignatures-methods
barplotSignatures,epheno,GeneSet-method	barplotSignatures-methods
barplotSignatures,epheno,GeneSetCollection-method	barplotSignatures-methods
barplotSignatures,epheno,list-method	barplotSignatures-methods
barplotSignatures-methods	barplotSignatures-methods
barplotSignifSignatures	plots4epheno
barplotSignifSignatures,epheno,character-method	barplotSignifSignatures-methods
barplotSignifSignatures,epheno,GeneSet-method	barplotSignifSignatures-methods
barplotSignifSignatures,epheno,GeneSetCollection-method	barplotSignifSignatures-methods
barplotSignifSignatures,epheno,list-method	barplotSignifSignatures-methods
barplotSignifSignatures-methods	barplotSignifSignatures-methods
ClusterPhenoTest	ClusterPhenoTest
dim,epheno-method	epheno-class
epheno	epheno
epheno-class	epheno-class
epheno2html	epheno2html
eset	eset
eset.genelevel	eset.genelevel
eset2genelevel	eset2genelevel
export2CSV	export2CSV
export2CSV,epheno-method	export2CSV-methods
export2CSV-methods	export2CSV-methods
ExpressionPhenoTest	ExpressionPhenoTest
findCopyNumber	findCopyNumber
genesInArea	genesInArea
getEs	getGseaSignatures
getEs,gseaData-method	gseaData-class
getEs,gseaSignaturesSign-method	gseaSignaturesSign-class
getEs,gseaSignaturesVar-method	gseaSignaturesVar-class
getEsPositions	getEsPositions
getEsSim	getGseaSignatures
getEsSim,gseaData-method	gseaData-class
getEsSim,gseaSignaturesSign-method	gseaSignaturesSign-class
getEsSim,gseaSignaturesVar-method	gseaSignaturesVar-class
getFc	ephenoGetters
getFc,epheno-method	epheno-class
getFcHr	getGseaSignatures
getFcHr,gseaData-method	gseaData-class
getFcHr,gseaSignaturesSign-method	gseaSignaturesSign-class
getFcHr,gseaSignaturesVar-method	gseaSignaturesVar-class
getGo	getGo
getHr	ephenoGetters
getHr,epheno-method	epheno-class
getKegg	getKegg
getMeans	ephenoGetters
getMeans,epheno-method	epheno-class
getNes	getGseaSignatures
getPostProbs	ephenoGetters
getPostProbs,epheno-method	epheno-class
getPvals	ephenoGetters
getPvals,epheno-method	epheno-class
getSignif	ephenoGetters
getSignif,epheno-method	epheno-class
getSummaryDif	ephenoGetters
getSummaryDif,epheno-method	epheno-class
getVars2test	getVars2test
getVars2test,epheno-method	getVars2test-methods
getVars2test-methods	getVars2test-methods
gsea	gsea
gsea.go	gsea.kegg.go
gsea.kegg	gsea.kegg.go
gsea.selGsets	gsea.subset
gsea.selVars	gsea.subset
gsea2html	gsea2html
gseaData-class	gseaData-class
gseaSignatures	gseaSignatures
gseaSignatures,ANY,character-method	gseaSignatures-methods
gseaSignatures,ANY,GeneSet-method	gseaSignatures-methods
gseaSignatures,epheno,GeneSetCollection-method	gseaSignatures-methods
gseaSignatures,epheno,list-method	gseaSignatures-methods
gseaSignatures,matrix,GeneSetCollection-method	gseaSignatures-methods
gseaSignatures,matrix,list-method	gseaSignatures-methods
gseaSignatures,numeric,GeneSetCollection-method	gseaSignatures-methods
gseaSignatures,numeric,list-method	gseaSignatures-methods
gseaSignatures-class	gseaSignatures-class
gseaSignatures-methods	gseaSignatures-methods
gseaSignaturesSign-class	gseaSignaturesSign-class
gseaSignaturesVar-class	gseaSignaturesVar-class
gseaSignificance	gseaSignificance
gseaSignificance,gseaSignaturesSign-method	gseaSignaturesSign-class
gseaSignificance,gseaSignaturesVar-method	gseaSignaturesVar-class
gseaSignificanceSign-class	gseaSignificanceSign-class
gseaSignificanceVar-class	gseaSignificanceVar-class
heatmapPhenoTest	heatmapPhenoTest
heatmapPhenoTest,ExpressionSet,character-method	heatmapPhenoTest-methods
heatmapPhenoTest,ExpressionSet,GeneSet-method	heatmapPhenoTest-methods
heatmapPhenoTest,ExpressionSet,GeneSetCollection-method	heatmapPhenoTest-methods
heatmapPhenoTest,ExpressionSet,list-method	heatmapPhenoTest-methods
heatmapPhenoTest,ExpressionSet,missing-method	heatmapPhenoTest-methods
heatmapPhenoTest-methods	heatmapPhenoTest-methods
logFcHr	ephenoGetters
logFcHr,epheno-method	epheno-class
p.adjust.method	ephenoGetters
p.adjust.method,epheno-method	epheno-class
pAdjust	pAdjust
pAdjust,epheno-method	pAdjust-methods
pAdjust-methods	pAdjust-methods
pca	pca
phenoClass	ephenoGetters
phenoClass,epheno-method	epheno-class
phenoNames	ephenoGetters
phenoNames,epheno-method	epheno-class
phenoTest	phenoTest-package
plot.gseaData	plot.gsea
plot.gseaSignaturesSign	plot.gseaSignatures
plot.gseaSignaturesVar	plot.gseaSignatures
show,AnnotatedDataFrame-method	show-methods
show,ANY-method	show-methods
show,classRepresentation-method	show-methods
show,container-method	show-methods
show,epheno-method	epheno-class
show,eSet-method	show-methods
show,genericFunction-method	show-methods
show,gseaData-method	gseaData-class
show,gseaSignaturesSign-method	show-methods
show,gseaSignaturesVar-method	show-methods
show,gseaSignificanceSign-method	show-methods
show,gseaSignificanceVar-method	show-methods
show,LargeDataObject-method	show-methods
show,MethodDefinition-method	show-methods
show,MethodSelectionReport-method	show-methods
show,MethodWithNext-method	show-methods
show,MIAME-method	show-methods
show,namedList-method	show-methods
show,ObjectsWithPackage-method	show-methods
show,oldClass-method	show-methods
show,ScalarCharacter-method	show-methods
show,ScalarObject-method	show-methods
show,signature-method	show-methods
show,TestResults-method	show-methods
show,traceable-method	show-methods
show,Versioned-method	show-methods
show,Versions-method	show-methods
show,VersionsNull-method	show-methods
show-methods	show-methods
smoothCoxph	smoothCoxph
summary.gseaData	summary.gsea
summary.gseaSignificanceSign	summary.gseaSignificance
summary.gseaSignificanceVar	summary.gseaSignificance
write.html	write.html
[,epheno,ANY,ANY,ANY-method	ephenoGetters
[,epheno,ANY,ANY-method	epheno-class
