biocarta | BioCarta pathways |
convertIdentifiers | Convert the node identifiers of a pathway. |
cytoscapePlot | Plot a pathway graph in Cytoscape |
edges-method | Class '"pathway"' |
kegg | KEGG pathways |
nci | NCI pathways |
nodes-method | Class '"pathway"' |
pathway-class | Class '"pathway"' |
pathwayGraph | Graph representing the topology of a pathway |
prepareSPIA | Prepare pathway dataset needed by runSPIA. |
reactome | Reactome pathways |
runDEGraph | Run topological analysis on expression dataset using DEGraph package. See 'testOneGraph'. |
runSPIA | Run SPIA analysis |
runTopologyGSA | Run topological analysis on expression dataset using topologyGSA. See topologyGSA. |
show-method | Class '"pathway"' |