API for ctlab/phantasus
Visual and interactive gene expression analysis
| Global functions | |
|---|---|
| adjustDataset | Man page |
| annotationDBMeta | Man page |
| areCacheFoldersValid | Source code |
| calcPCA | Man page Source code |
| calculatedAnnotation | Man page |
| checkBinValidity | Source code |
| checkGPLsFallback | Man page |
| checkGSEType | Man page |
| colMeansByGroups | Man page Source code |
| collapseDataset | Man page |
| confFile | Source code |
| configureAnnotDB | Source code |
| configureFGSEA | Source code |
| configureGEOcache | Source code |
| configureRnaseqCounts | Source code |
| convertByAnnotationDB | Man page |
| createDockerConf | Man page |
| createES | Man page Source code |
| deseqAnalysisAdvancedImpl | Source code |
| deseqAnalysisSimpleImpl | Source code |
| es | Man page |
| fgseaExample | Man page |
| generatePreloadedSession | Man page |
| generateReleaseJS | Source code |
| getArchs4Files | Man page Source code |
| getBriefData | Source code |
| getCountsMetaPart | Man page Source code |
| getDesignMatrix | Source code |
| getES | Man page |
| getFileIndexDF | Source code |
| getGDS | Man page Source code |
| getGEODir | Source code |
| getGSE | Man page |
| getIndicesVector | Source code |
| getPhantasusConf | Man page Source code |
| getSetupConf | Source code |
| gseaPlot | Man page Source code |
| isCountsMetaOld | Source code |
| isCountsPriorityValid | Source code |
| isHSDS | Man page Source code |
| isValidExperimentID | Source code |
| limmaAnalysis | Man page |
| limmaAnalysisAdvancedImpl | Source code |
| limmaAnalysisSimpleImpl | Source code |
| loadCounts | Man page Source code |
| loadFromARCHS4 | Man page Source code |
| loadGEO | Man page Source code |
| loadPreloaded | Man page Source code |
| makeAnnotated | Source code |
| parseBriefData | Source code |
| performKmeans | Man page Source code |
| phantasusVersion | Source code |
| queryAnnotationDBMeta | Man page |
| rasterizeHeatmap | Source code |
| read.gct | Man page Source code |
| read.tsv | Source code |
| reparseCachedESs | Man page |
| reproduceInR | Man page |
| rw_dir_check | Source code |
| safeDownload | Source code |
| selfCheck | Source code |
| servePhantasus | Man page Source code |
| sessionExists | Source code |
| setupPhantasus | Man page Source code |
| shinyGAMAnalysis | Man page Source code |
| stopPhantasus | Source code |
| subsetES | Man page Source code |
| take | Source code |
| tmmNormalization | Source code |
| updateARCHS4 | Man page |
| updateARCHS4meta | Man page Source code |
| updateCountsMeta | Man page Source code |
| updateDEE2meta | Man page Source code |
| validateCountsCollection | Man page Source code |
| voomNormalization | Source code |
| write.gct | Man page Source code |
| writeToList | Source code |
