GRAPH Interaction from pathway Topological Environment

Documentation for package ‘graphite’ version 1.2.0

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"'