Seamless navigation through combined results of set-based and network-based enrichment analysis

Global functions | |
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GS.format.dataframe.to.list | Source code |

GSEA | Source code |

GSEA.EnrichmentScore | Source code |

GSEA.EnrichmentScore2 | Source code |

GSEA.GeneRanking | Source code |

SAMGS | Source code |

SAMGS2 | Source code |

annoP2G | Source code |

annoPkg2Org | Source code |

annotateSE | Source code |

approxPval | Source code |

availableOrgPkgs | Source code |

cacheResource | Source code |

cepa | Source code |

checkOutDir | Source code |

chooseID | Source code |

clipper | Source code |

comb.ea.results | Man page Source code |

combRanks | Source code |

combResults | Man page Source code |

compDE | Source code |

compile.grn.from.kegg | Man page Source code |

compileGRN | Man page Source code |

compileGRNFromGraphite | Source code |

compileGRNFromKEGG | Source code |

config.ebrowser | Man page Source code |

configEBrowser | Man page Source code |

constructGGEAGraph | Source code |

createGS | Source code |

createIdentifier | Source code |

createIndex | Source code |

de.ana | Man page Source code |

deAna | Man page Source code |

degraph | Source code |

detectDataType | Source code |

detectGSType | Source code |

detectGeneIdType | Source code |

determineEdgeColor | Source code |

determineEdgeLwd | Source code |

determineNodeColor | Source code |

dmap | Source code |

dmapSE | Source code |

download.kegg.pathways | Man page Source code |

downloadPathways | Man page Source code |

dwnldAllKeggGS | Source code |

dwnldSelectedKeggGS | Source code |

ea.browse | Man page Source code |

eaBrowse | Man page Source code |

ebm | Source code |

ebrowser | Man page Source code |

exclNaIds | Source code |

exprsHeatmap | Man page Source code |

extrPwyDat | Source code |

extractKeggGS | Source code |

extractPwys | Source code |

filterEdges | Source code |

fisherComb | Source code |

formatEAResult | Source code |

ganpa | Source code |

geneReport | Source code |

geneTable | Source code |

get.go.genesets | Man page Source code |

get.kegg.genesets | Man page Source code |

getAnnoPkg | Source code |

getEdgeType | Source code |

getFirstToId | Source code |

getGO | Source code |

getGOFromBiomart | Source code |

getGOFromGODB | Source code |

getGeneAnno | Source code |

getGeneFreqWeights | Source code |

getGenesByPwy | Source code |

getGenesets | Man page Source code |

getHTMLOfMarkedPathway | Source code |

getKEGG | Source code |

getKEGGDisplayName | Source code |

getKEGGRels | Source code |

getNodeName | Source code |

getOrgIdType | Source code |

getRanks | Source code |

getResourceFromCache | Source code |

ggea | Man page Source code |

ggea.graph | Man page Source code |

ggea.graph.legend | Man page Source code |

ggeaGraph | Man page Source code |

ggeaGraphLegend | Man page Source code |

global.GSA | Source code |

global.GSEA | Source code |

global.PADOG | Source code |

global.SAMGS | Source code |

globaltest | Source code |

gmt2cmat | Source code |

grn2adjm | Source code |

grn2gnet | Source code |

gs.ranking | Man page Source code |

gsList2Collect | Source code |

gsRanking | Man page Source code |

gsa | Source code |

gsea | Man page Source code |

gsva | Source code |

idMap | Man page Source code |

idMap2 | Source code |

idMapGSC | Source code |

idTypes | Man page Source code |

isAvailable | Man page Source code |

local.deAna | Source code |

local.s2n | Source code |

local.t.SAM | Source code |

makeExampleData | Man page Source code |

makeExmplGRN | Source code |

makeExmplGS | Source code |

makeExmplRes | Source code |

makeExmplSE | Source code |

makeGGraphHTML | Source code |

makeGSC | Source code |

makeGSNames | Source code |

makeHmapHTML | Source code |

makeKGraphHTML | Source code |

makeKPathHTML | Source code |

makeKeggGSC | Source code |

makeSPIAData | Source code |

makeView | Source code |

makeVolcHTML | Source code |

map.ids | Man page Source code |

mgsa | Source code |

naTreat | Source code |

nbea | Man page Source code |

nbeaMethods | Man page Source code |

ncbiGeneLink | Source code |

nea | Source code |

netgsa | Source code |

normalize | Man page Source code |

onLoad | Source code |

ora | Man page Source code |

oraHypergeom | Source code |

org2pkg | Source code |

padog | Source code |

parse.genesets.from.GMT | Man page Source code |

parseGMT | Source code |

pathnet | Source code |

pathview2 | Source code |

pdistr | Man page Source code |

permEdgesPval | Source code |

permGenesPval | Source code |

permSamplesPval | Source code |

plotGGEAGraph | Source code |

plots | Man page |

prepGS | Source code |

preprocSE | Source code |

probe.2.gene.eset | Man page Source code |

probe2gene | Man page Source code |

probe2geneAverage | Source code |

processDB | Source code |

pruneGRN | Source code |

pubmedLink | Source code |

queryGRN | Source code |

read.eset | Man page Source code |

readGRN | Source code |

readSE | Man page Source code |

resolveDuplicateIDs | Source code |

resolveMultiTo | Source code |

roast.camera | Source code |

rowMeansVars | Source code |

rseqSBEA | Source code |

sConsistent | Source code |

sSig | Source code |

sWholenumber | Source code |

sam.TlikeStat | Source code |

sbea | Man page Source code |

sbeaMethods | Man page Source code |

scoreGRN | Source code |

sortGeneTable | Source code |

spia | Man page Source code |

stoufferComb | Source code |

topogsa | Source code |

transformGRN | Source code |

transformGS | Source code |

viewGraph | Source code |

viewPath | Source code |

viewSet | Source code |

volcano | Man page Source code |

writeGMT | Man page Source code |

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