API for EnrichmentBrowser
Seamless navigation through combined results of set-based and network-based enrichment analysis
| Global functions | |
|---|---|
| .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 |
| .combRanks | Source code |
| .compDE | Source code |
| .compileGRNFromGraphite | Source code |
| .compileGRNFromKEGG | Source code |
| .constructGGEAGraph | Source code |
| .createGS | Source code |
| .createIdentifier | Source code |
| .createIndex | Source code |
| .degraph | Source code |
| .deseq | Source code |
| .detectDataType | Source code |
| .detectGSType | Source code |
| .detectGeneIdType | Source code |
| .detectImportType | Source code |
| .determineEdgeColor | Source code |
| .determineEdgeLwd | Source code |
| .determineNodeColor | Source code |
| .dwnldAllKeggGS | Source code |
| .dwnldSelectedKeggGS | Source code |
| .ebm | Source code |
| .edger | Source code |
| .enrichrLibs | Source code |
| .enrichrSpecies | Source code |
| .exclNaIds | Source code |
| .execArgs | Source code |
| .extrPwyDat | Source code |
| .extractInfoFromSE | Source code |
| .extractKeggGS | Source code |
| .extractPwys | Source code |
| .extractTitle | Source code |
| .filterEdges | Source code |
| .filterRSeq | Source code |
| .fisherComb | Source code |
| .formatEAResult | Source code |
| .ganpa | Source code |
| .geneReport | Source code |
| .geneTable | Source code |
| .getAnnoPkg | Source code |
| .getAssay | Source code |
| .getDesign | Source code |
| .getEdgeType | Source code |
| .getEnrichr | Source code |
| .getEnrichrLib | Source code |
| .getFirstToId | Source code |
| .getGO | Source code |
| .getGOFromBiomart | Source code |
| .getGOFromGODB | Source code |
| .getGeneAnno | Source code |
| .getGeneFreqWeights | Source code |
| .getGenesByPwy | Source code |
| .getHTMLOfMarkedPathway | Source code |
| .getKEGG | Source code |
| .getKEGGDisplayName | Source code |
| .getKEGGRels | Source code |
| .getMSigDb | Source code |
| .getNodeName | Source code |
| .getOrgIdType | Source code |
| .getRanks | Source code |
| .getResourceFromCache | Source code |
| .ggea | Source code |
| .globaltest | Source code |
| .gmt2cmat | Source code |
| .goCollections | Source code |
| .goSpecies | Source code |
| .grn2adjm | Source code |
| .grn2gnet | Source code |
| .gs2cmat | Source code |
| .gsList2Collect | Source code |
| .gsa | Source code |
| .gsea | Source code |
| .gsva | Source code |
| .idMapGRN | Source code |
| .idMapGS | Source code |
| .idMapGSC | Source code |
| .idMapSE | Source code |
| .idmap | Source code |
| .idmapRD | Source code |
| .importFromDESeq2 | Source code |
| .importFromEdgeR | Source code |
| .importFromLimma | Source code |
| .isConsistent | Source code |
| .isSig | Source code |
| .isWholenumber | Source code |
| .keggCollections | Source code |
| .keggSpecies | Source code |
| .limma | 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 |
| .mapStats | Source code |
| .matchArgs | Source code |
| .mgsa | Source code |
| .msigdbCollections | Source code |
| .msigdbSpecies | Source code |
| .naTreat | Source code |
| .ncbiGeneLink | Source code |
| .nea | Source code |
| .neat | Source code |
| .netgsa | Source code |
| .onLoad | Source code |
| .ora | Source code |
| .oraHypergeom | Source code |
| .org2enrichr | Source code |
| .org2pkg | Source code |
| .padog | Source code |
| .parseGMT | Source code |
| .pathnet | Source code |
| .permEdgesPval | Source code |
| .permGenesPval | Source code |
| .permSamplesPval | Source code |
| .plotGGEAGraph | Source code |
| .prepGS | Source code |
| .preprocSE | Source code |
| .probe2geneAverage | Source code |
| .processDB | Source code |
| .pruneGRN | Source code |
| .pubmedLink | Source code |
| .queryGRN | Source code |
| .readGRN | Source code |
| .reorderAssays | Source code |
| .resolveDuplicateIDs | Source code |
| .resolveMultiTo | Source code |
| .roast.camera | Source code |
| .rseqSBEA | Source code |
| .samgs | Source code |
| .scoreGRN | Source code |
| .setAssay | Source code |
| .setupConfig | Source code |
| .sortGeneTable | Source code |
| .spia | Source code |
| .stdArgs | Source code |
| .stoufferComb | Source code |
| .topogsa | Source code |
| .transformGRN | Source code |
| .transformGS | Source code |
| .viewGraph | Source code |
| .viewPath | Source code |
| .viewSet | Source code |
| .vst | Source code |
| 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 |
| comb.ea.results | Man page |
| combResults | Man page Source code |
| compile.grn.from.kegg | Man page |
| compileGRN | Man page Source code |
| config.ebrowser | Man page |
| configEBrowser | Man page Source code |
| de.ana | Man page |
| deAna | Man page Source code |
| download.kegg.pathways | Man page |
| downloadPathways | Man page Source code |
| ea.browse | Man page |
| eaBrowse | Man page Source code |
| ebrowser | Man page Source code |
| exprsHeatmap | Man page Source code |
| get.go.genesets | Man page |
| get.kegg.genesets | Man page |
| getGenesets | Man page Source code |
| ggea | Man page |
| ggea.graph | Man page |
| ggea.graph.legend | Man page |
| ggeaGraph | Man page Source code |
| ggeaGraphLegend | Man page Source code |
| global.GSA | Source code |
| global.PADOG | Source code |
| global.SAMGS | Source code |
| gs.ranking | Man page |
| gsRanking | Man page Source code |
| gsea | Man page |
| idMap | Man page Source code |
| idTypes | Man page Source code |
| import | Man page Source code |
| isAvailable | Man page Source code |
| makeExampleData | Man page Source code |
| map.ids | Man page |
| nbea | Man page Source code |
| nbeaMethods | Man page Source code |
| normalize | Man page Source code |
| ora | Man page |
| parse.genesets.from.GMT | Man page |
| pathview2 | Source code |
| pdistr | Man page Source code |
| plots | Man page |
| probe.2.gene.eset | Man page |
| probe2gene | Man page Source code |
| read.eset | Man page |
| readSE | Man page Source code |
| rowMeansVars | Source code |
| sam.TlikeStat | Source code |
| sbea | Man page Source code |
| sbeaMethods | Man page Source code |
| showAvailableCollections | Man page Source code |
| showAvailableSpecies | Man page Source code |
| spia | Man page |
| volcano | Man page Source code |
| writeGMT | Man page Source code |
