Pathway-class           Class '"Pathway"'
PathwayList-class       Class '"PathwayList"'
Pathways-class          Class '"Pathways"'
as.list.PathwayList     Convertion of PathwayLists into lists.
buildPathway            Build a Pathway object.
convertIdentifiers      Convert the node identifiers of a pathway.
cytoscapePlot           Plot a pathway graph in Cytoscape
pathwayDatabases        List the available pathway databases.
pathwayGraph            Graph representing the topology of a pathway
pathways                Retrieve a list of pathways.
prepareSPIA             Prepare pathway dataset needed by runSPIA.
purgeCacheV1            Purge Pathway Data Cache (Format v1)
runClipper              Run a topological analysis on an expression
                        dataset using clipper.
runSPIA                 Run SPIA analysis
runTopologyGSA          Run a topological analysis on an expression
                        dataset using topologyGSA.
