API for GoekeLab/proActiv
Estimate Promoter Activity from RNA-Seq data
| Global functions | |
|---|---|
| %>% | Man page |
| 'intronRanges<-',PromoterAnnotation-method | Man page |
| 'promoterCoordinates<-',PromoterAnnotation-method | Man page |
| 'promoterIdMapping<-',PromoterAnnotation-method | Man page |
| PromoterAnnotation | Man page Source code |
| PromoterAnnotation-class | Man page |
| annotateAllIntronRanges | Source code |
| annotateIntronRanges | Source code |
| annotateReducedExonRanges | Source code |
| annotateUniqueIntronRanges | Source code |
| arrange | Man page |
| as_tibble | Man page |
| assays | Man page |
| boxplotPromoters | Man page Source code |
| buildSummarizedExperiment | Source code |
| calculateJunctionReadCounts | Man page Source code |
| calculatePromoterReadCounts | Man page Source code |
| categorizePromoters | Source code |
| colData | Man page |
| filter | Man page |
| fitPromoters | Source code |
| generateBoxplot | Source code |
| getAbsolutePromoterActivity | Man page Source code |
| getAlternativePromoters | Man page Source code |
| getExonRangesByTx | Source code |
| getFirstExonRanges | Source code |
| getGeneExpression | Man page Source code |
| getIntronIdPerPromoter | Source code |
| getIntronRangesByTx | Source code |
| getIntronRanks | Source code |
| getIntronTable | Source code |
| getPromoterMetadata | Source code |
| getReducedExonRanges | Source code |
| getRelativePromoterActivity | Man page Source code |
| getTranscriptRanges | Source code |
| getTssRanges | Source code |
| getUniqueIntronRanges | Source code |
| group_by | Man page |
| integrateProactiv | Man page Source code |
| intronRanges | Man page |
| intronRanges,PromoterAnnotation-method | Man page |
| intronRanges<- | Man page |
| intronRanges<-,PromoterAnnotation-method | Man page |
| loadDb | Man page |
| mutate | Man page |
| n | Man page |
| normalizePromoterReadCounts | Man page Source code |
| parseFile | Source code |
| parseTxdb | Source code |
| plotHeatmap | Man page Source code |
| plotPCA | Man page Source code |
| preparePromoterAnnotation | Man page Source code |
| proActiv | Man page Source code |
| promoterAnnotation.gencode.v34.subset | Man page |
| promoterCoordinates | Man page |
| promoterCoordinates,PromoterAnnotation-method | Man page |
| promoterCoordinates<- | Man page |
| promoterCoordinates<-,PromoterAnnotation-method | Man page |
| promoterIdMapping | Man page |
| promoterIdMapping,PromoterAnnotation-method | Man page |
| promoterIdMapping<- | Man page |
| promoterIdMapping<-,PromoterAnnotation-method | Man page |
| reexports | Man page |
| rowData | Man page |
| rownames_to_column | Man page |
| summarizeAcrossCondition | Source code |
