API for icetea
Integrating Cap Enrichment with Transcript Expression Analysis
| Global functions | |
|---|---|
| CapSet | Man page |
| CapSet-class | Man page |
| activeChrs | Man page Source code |
| annotateTSS | Man page Source code |
| check_capSet | Man page Source code |
| demultiplexFASTQ | Man page |
| demultiplexFASTQ,CapSet-method | Man page |
| detectDiffTSS | Man page |
| detectDiffTSS,DESeqDataSet-method | Man page |
| detectDiffTSS,DGEGLM-method | Man page |
| detectTSS | Man page |
| detectTSS,CapSet-method | Man page |
| diffQCplots | Man page Source code |
| exampleCSobject | Man page Source code |
| exportTSS | Man page |
| exportTSS,CapSet-method | Man page |
| filterDuplicates | Man page |
| filterDuplicates,CapSet-method | Man page |
| filterDups | Man page Source code |
| filterdups_func | Source code |
| fitDiffTSS | Man page |
| fitDiffTSS,CapSet-method | Man page |
| getBamFlags | Man page Source code |
| getChromBins | Man page Source code |
| getChromWindows | Man page Source code |
| getGeneCounts | Man page |
| getGeneCounts,CapSet-method | Man page |
| getMCparams | Man page Source code |
| getNormFactors | Man page |
| getNormFactors,CapSet-method | Man page |
| get_newfastq | Man page Source code |
| get_stackedNum | Source code |
| getranks | Man page Source code |
| localFilter | Source code |
| mapCaps | Man page |
| mapCaps,CapSet-method | Man page |
| newCapSet | Man page Source code |
| numReadsInBed | Man page Source code |
| plotCompBias | Source code |
| plotPrecision | Man page Source code |
| plotReadStats | Man page |
| plotReadStats,CapSet-method | Man page |
| plotTSSprecision | Man page |
| plotTSSprecision,GRanges,CapSet-method | Man page |
| plotTSSprecision,GRanges,character-method | Man page |
| readsTo3p | Man page Source code |
| readsTo5p | Man page Source code |
| readsToCenter | Man page Source code |
| sampleInfo | Man page |
| sampleInfo,CapSet-method | Man page |
| sampleInfo<- | Man page |
| sampleInfo<-,CapSet-method | Man page |
| splitBAM_byIndex | Man page Source code |
| splitBAM_byRepindex | Man page Source code |
| split_fastq | Man page Source code |
| splitranks | Man page Source code |
| strandBinCounts | Man page Source code |
