$,DeprecatedPathwayList-method	DeprecatedPathwayList-class
$,PathwayList-method	PathwayList-class
as.list.DeprecatedPathwayList	as.list.DeprecatedPathwayList
as.list.PathwayList	as.list.PathwayList
biocarta	biocarta
convertIdentifiers	convertIdentifiers
convertIdentifiers,DeprecatedPathwayList-method	DeprecatedPathwayList-class
convertIdentifiers,Pathway-method	Pathway-class
convertIdentifiers,PathwayList-method	PathwayList-class
cytoscapePlot	cytoscapePlot
DeprecatedPathwayList-class	DeprecatedPathwayList-class
edges,Pathway,ANY-method	Pathway-class
humancyc	humancyc
kegg	kegg
length,DeprecatedPathwayList-method	DeprecatedPathwayList-class
length,PathwayList-method	PathwayList-class
names,DeprecatedPathwayList-method	DeprecatedPathwayList-class
names,PathwayList-method	PathwayList-class
nci	nci
nodes,Pathway-method	Pathway-class
panther	panther
Pathway-class	Pathway-class
pathwayDatabases	pathwayDatabases
pathwayGraph	pathwayGraph
PathwayList-class	PathwayList-class
pathways	pathways
Pathways-class	Pathways-class
plot,Pathway,ANY-method	Pathway-class
prepareSPIA	prepareSPIA
prepareSPIA,DeprecatedPathwayList-method	DeprecatedPathwayList-class
prepareSPIA,list-method	prepareSPIA
prepareSPIA,PathwayList-method	PathwayList-class
reactome	reactome
runClipper	runClipper
runClipper,DeprecatedPathwayList-method	DeprecatedPathwayList-class
runClipper,list-method	runClipper
runClipper,Pathway-method	Pathway-class
runClipper,PathwayList-method	PathwayList-class
runClipperMulti	runClipperMulti
runDEGraph	runDEGraph
runDEGraph,DeprecatedPathwayList-method	DeprecatedPathwayList-class
runDEGraph,list-method	runDEGraph
runDEGraph,Pathway-method	Pathway-class
runDEGraph,PathwayList-method	PathwayList-class
runDEGraphMulti	runDEGraphMulti
runSPIA	runSPIA
runTopologyGSA	runTopologyGSA
runTopologyGSA,DeprecatedPathwayList-method	DeprecatedPathwayList-class
runTopologyGSA,list-method	runTopologyGSA
runTopologyGSA,Pathway-method	Pathway-class
runTopologyGSA,PathwayList-method	PathwayList-class
runTopologyGSAMulti	runTopologyGSAMulti
[,DeprecatedPathwayList-method	DeprecatedPathwayList-class
[,PathwayList-method	PathwayList-class
[[,DeprecatedPathwayList-method	DeprecatedPathwayList-class
[[,PathwayList-method	PathwayList-class
