API for shbrief/PCAGenomicSignatures
Interpretation of RNA-seq experiments through robust, efficient comparison to public databases
| Global functions | |
|---|---|
| .PCAGenomicSignatures | Man page |
| .RAVName | Man page Source code |
| .RAVmodelVersion | Source code |
| .availableRAV | Source code |
| .calculateSilhouetteWidth | Man page |
| .extractExprsMatrix | Source code |
| .filterBy | Source code |
| .heatmapTableMultiStudies | Source code |
| .loadingCor | Man page Source code |
| .lowQualityRAVs | Source code |
| .validateScore | Source code |
| .validatedSignaturesForMulipleStudies | Source code |
| .varByPCsInCluster | Source code |
| GenomicSignatures-class | Man page |
| GenomicSignatures-methods | Man page |
| PCAGenomicSignatures | Man page Source code |
| PCAGenomicSignatures-class | Man page |
| PCAGenomicSignatures-methods | Man page |
| PCAsummary | Man page |
| PCAsummary,PCAGenomicSignatures-method | Man page |
| PCAsummary<- | Man page |
| PCAsummary<-,PCAGenomicSignatures-method | Man page |
| PCinRAV | Man page Source code |
| RAVindex | Man page |
| RAVindex,GenomicSignatures-method | Man page |
| annotatePC | Man page Source code |
| annotateRAV | Man page Source code |
| availableRAVmodel | Man page Source code |
| buildAvgLoading | Man page Source code |
| calculateScore | Man page Source code |
| colData | Man page |
| drawWordcloud | Man page Source code |
| droplist | Man page |
| extractPC | Man page Source code |
| filterList | Man page |
| findKeywordInRAV | Man page Source code |
| findSignature | Man page Source code |
| findStudiesInCluster | Man page Source code |
| geneSets | Man page |
| geneSets,GenomicSignatures-method | Man page |
| geneSets<- | Man page |
| geneSets<-,GenomicSignatures-method | Man page |
| getModel | Man page Source code |
| getRAVInfo | Man page Source code |
| getStudyInfo | Man page Source code |
| gsea | Man page |
| gsea,PCAGenomicSignatures-method | Man page |
| gsea<- | Man page |
| gsea<-,PCAGenomicSignatures-method | Man page |
| heatmapTable | Man page Source code |
| mesh | Man page |
| mesh,PCAGenomicSignatures-method | Man page |
| mesh<- | Man page |
| mesh<-,PCAGenomicSignatures-method | Man page |
| meshTable | Man page Source code |
| metadata | Man page |
| miniAllZ | Man page |
| miniRAVmodel | Man page |
| miniTCGA | Man page |
| plotAnnotatedPCA | Man page Source code |
| plotValidate | Man page Source code |
| res_hcut | Man page |
| rmNaInf | Man page Source code |
| s2p_cached_url | Source code |
| s2p_get_cache | Source code |
| sampleScoreHeatmap | Man page Source code |
| show,PCAGenomicSignatures-method | Man page |
| silhouetteWidth | Man page |
| silhouetteWidth,PCAGenomicSignatures-method | Man page |
| silhouetteWidth<- | Man page |
| silhouetteWidth<-,PCAGenomicSignatures-method | Man page |
| studies | Man page |
| studies,PCAGenomicSignatures-method | Man page |
| studies<- | Man page |
| studies<-,PCAGenomicSignatures-method | Man page |
| subsetEnrichedPathways | Man page Source code |
| trainingData | Man page |
| trainingData,PCAGenomicSignatures-method | Man page |
| trainingData<- | Man page |
| trainingData<-,PCAGenomicSignatures-method | Man page |
| updateNote | Man page |
| updateNote,GenomicSignatures-method | Man page |
| updateNote<- | Man page |
| updateNote<-,GenomicSignatures-method | Man page |
| validate | Man page Source code |
| validatedSignatures | Man page Source code |
| version,GenomicSignatures-method | Man page |
