API for compbiomed/scuff
Single Cell RNA-Seq UMI Filtering Facilitator (scruff)
| Global functions | |
|---|---|
| .alignRsubreadUnit | Source code |
| .bamIterator | Source code |
| .checkCellBarcodes | Source code |
| .checkCores | Source code |
| .checkGTF | Source code |
| .countUmiUnit | Source code |
| .demultiplexUnit | Source code |
| .fastqIterator | Source code |
| .getAlignmentFilePaths | Source code |
| .getGeneAnnotation | Source code |
| .gtfReadDb | Source code |
| .logMessages | Source code |
| .plotAvgReadsPerCorrectedUMI | Source code |
| .plotAvgReadsPerUMI | Source code |
| .plotCounts | Source code |
| .plotFracProteinCodingGenes | Source code |
| .plotFracProteinCodingTranscripts | Source code |
| .plotGeneToGenomeFraction | Source code |
| .plotGeneToTotalFraction | Source code |
| .plotGenes | Source code |
| .plotGenesPerMillionReads | Source code |
| .plotGenomeReadsFraction | Source code |
| .plotMedReadsPerCorrectedUMI | Source code |
| .plotMedReadsPerUMI | Source code |
| .plotMtCounts | Source code |
| .plotMtCountsFraction | Source code |
| .plotReadsMappedToGenes | Source code |
| .plotReadsMappedToGenome | Source code |
| .plotTotalReads | Source code |
| .removeLastExtension | Source code |
| .stripLeadingUnderscore | Source code |
| .tenxBamqcUnit | Source code |
| .tenxCheckCellBarcodes | Source code |
| .themePublication | Source code |
| .toBam | Source code |
| alignRsubread | Man page Source code |
| bamExample | Man page |
| barcodeExample | Man page |
| cbtop10000 | Man page |
| countUMI | Man page Source code |
| demultiplex | Man page Source code |
| gview | Man page Source code |
| qcplots | Man page Source code |
| rview | Man page Source code |
| sceExample | Man page |
| scruff | Man page Source code |
| tenxBamqc | Man page Source code |
| validCb | Man page |
