API for graphite
GRAPH Interaction from pathway Topological Environment
| Global functions | |
|---|---|
| $,PathwayList-method | Man page |
| .clipper | Source code |
| .clipperList | Source code |
| .prepareSPIA | Source code |
| .topologyGSA | Source code |
| .topologyGSAList | Source code |
| Pathway-class | Man page |
| PathwayList-class | Man page |
| Pathways-class | Man page |
| [,PathwayList-method | Man page |
| [[,PathwayList-method | Man page |
| adaptiveLapply | Source code |
| archiveDir | Source code |
| archivePath | Source code |
| as.list.PathwayList | Man page Source code |
| assertEdges | Source code |
| biocartaURL | Source code |
| buildGraphNEL | Source code |
| buildPathway | Man page Source code |
| checkEdgeTypes | Source code |
| checkIdentifier | Source code |
| checkPathwayList | Source code Source code |
| checkPkgVersion | Source code |
| convertColumn | Source code |
| convertEdges | Source code |
| convertIdentifiers | Man page |
| convertIdentifiers,Pathway-method | Man page |
| convertIdentifiers,PathwayList-method | Man page |
| convertSide | Source code |
| convertWithDbs | Source code |
| cytoscapePlot | Man page Source code |
| cytoscapePlot3 | Source code |
| datasetName | Source code |
| edgeList | Source code |
| edgeMatrix | Source code |
| edges,Pathway-method | Man page |
| endpoints | Source code |
| fetchRemote | Source code |
| filterPathwaysByNodeNum | Source code |
| fixEdges | Source code |
| humancycURL | Source code |
| initClipper | Source code |
| initTopologyGSA | Source code |
| insufficientCommonNodes | Source code |
| keggURL | Source code |
| length,PathwayList-method | Man page |
| literalDataFrame | Source code |
| loadData | Source code |
| loadDbs | Source code |
| loadLocal | Source code |
| loadMetaboliteDb | Source code |
| loadProteinDb | Source code |
| lookupKeys | Source code |
| markMultipleEdges | Source code |
| metabolites | Source code |
| nameLapply | Source code |
| names,PathwayList-method | Man page |
| nciURL | Source code |
| nodes,Pathway-method | Man page |
| pantherURL | Source code |
| parallelCluster | Source code |
| pathbankURL | Source code |
| pathwayDatabase | Man page Source code |
| pathwayDatabases | Man page Source code |
| pathwayGraph | Man page Source code |
| pathwayId | Man page Source code |
| pathwaySpecies | Man page Source code |
| pathwayTimestamp | Man page Source code |
| pathwayTitle | Man page Source code |
| pathwayURL | Man page Source code |
| pathways | Man page Source code |
| pharmgkbURL | Source code |
| plot,Pathway,ANY-method | Man page |
| prepareEdges | Source code |
| prepareSPIA | Man page |
| prepareSPIA,PathwayList-method | Man page |
| prepareSPIA,list-method | Man page |
| prettyDate | Source code |
| purgeCache | Source code |
| reactomeURL | Source code |
| remoteUrl | Source code |
| requirePkg | Source code |
| runClipper | Man page |
| runClipper,Pathway-method | Man page |
| runClipper,PathwayList-method | Man page |
| runClipper,list-method | Man page |
| runClipperMulti | Man page |
| runSPIA | Man page Source code |
| runTopologyGSA | Man page |
| runTopologyGSA,Pathway-method | Man page |
| runTopologyGSA,PathwayList-method | Man page |
| runTopologyGSA,list-method | Man page |
| runTopologyGSAMulti | Man page |
| selectConvColumns | Source code |
| selectDb | Source code |
| selectEdges | Source code |
| selectMapping | Source code |
| setEdgeAttributes | Source code |
| setNodeAttributes | Source code |
| smpdbURL | Source code |
| splitByType | Source code |
| switchTest | Source code |
| symmetric | Source code |
| translateEdges | Source code |
| viewNonNull | Source code |
| wrapFun | Source code |
