API for RCPA
Consensus Pathway Analysis
| Global functions | |
|---|---|
| .SPIAMod | Source code |
| .checkURLAvailable | Source code |
| .downloadGEOObject | Source code |
| .downloadSamples | Source code |
| .extractPairInfo | Source code |
| .getGEOSuppFiles | Source code |
| .getGOTermNames | Source code |
| .getGOTerms | Source code |
| .getIDMappingAnnotation | Source code |
| .getKEGGGeneSets | Source code |
| .getKEGGPathwayNames | Source code |
| .mapIDs | Source code |
| .requirePackage | Source code |
| .runAddCLT | Source code |
| .runCePaORA | Source code |
| .runFisher | Source code Source code |
| .runGeoMean | Source code |
| .runLimma | Source code |
| .runORA | Source code |
| .runSPIA | Source code |
| .runStouffer | Source code |
| .runWeightedMean | Source code |
| downloadGEO | Man page Source code |
| getCePaPathwayCatalogue | Man page Source code |
| getCommonDEGenes | Man page Source code |
| getCommonPathways | Man page Source code |
| getEntrezAnnotation | Man page Source code |
| getGeneSets | Man page Source code |
| getSPIAKEGGNetwork | Man page Source code |
| getSupportedPlatforms | Man page Source code |
| graphNELtoJSON.string | Source code |
| loadData | Man page Source code |
| plotBarChart | Man page Source code |
| plotDEGeneHeatmap | Man page Source code |
| plotForest | Man page Source code |
| plotKEGGMap | Man page Source code |
| plotMA | Man page Source code |
| plotPathwayHeatmap | Man page Source code |
| plotPathwayNetwork | Man page Source code |
| plotVennDE | Man page Source code |
| plotVennPathway | Man page Source code |
| plotVolcanoDE | Man page Source code |
| plotVolcanoPathway | Man page Source code |
| processAffymetrix | Man page Source code |
| processAgilent | Man page Source code |
| runConsensusAnalysis | Man page Source code |
| runDEAnalysis | Man page |
| runDEMetaAnalysis | Man page Source code |
| runGeneSetAnalysis | Man page |
| runPathwayAnalysis | Man page |
| runPathwayMetaAnalysis | Man page Source code |
