API for ETHZ-INS/epiwraps
epiwraps: Wrappers for plotting and dealing with epigenomics data
| Global functions | |
|---|---|
| .MAnorm | Source code |
| .S3norm | Source code |
| .align2cuts | Source code Source code |
| .applyMatricesScaling | Source code |
| .applyTrimming | Source code |
| .bam2bwGetReads | Source code |
| .bam2bwLocalBackground | Source code |
| .bam2bwReadChunk | Source code |
| .bam2bwScaleCovList | Source code |
| .breakRegions | Source code |
| .breakRegions2 | Source code |
| .bwRelativeSignal | Source code |
| .checkMissingSeqLevels | Source code |
| .checkRegions | Source code |
| .cleanFileNames | Source code |
| .comparableMatrices | Source code |
| .comparableStyles | Source code |
| .covListMin | Source code |
| .covTrimmedMean | Source code |
| .cpGetCandidates | Source code |
| .customPeaks2NarrowPeak | Source code |
| .doShift | Source code |
| .doSplitIR | Source code |
| .ese2ml | Source code |
| .filterFrags | Source code |
| .filterRegions | Source code |
| .frag2co | Source code |
| .fragLengthPlots | Source code |
| .getAxisLabels | Source code |
| .getBP | Source code |
| .getBamChunkParams | Source code |
| .getBinSignal | Source code |
| .getBinSignalFromBW | Source code |
| .getBinWidth | Source code |
| .getColFun | Source code |
| .getCovVals | Source code |
| .getLocalBackground | Source code |
| .getRefSampleFromPeaks | Source code |
| .getScaledSignalFromBW | Source code |
| .getSeqLevelsStyle | Source code |
| .getStrandedCoverages | Source code |
| .getSummits | Source code |
| .getTrimPoints | Source code |
| .grlBounds | Source code |
| .interp.surface | Source code |
| .makeMonotonic | Source code |
| .maketrans | Source code |
| .mdsSortRows | Source code |
| .medianSignalMat | Source code |
| .mergeRleListItems | Source code |
| .ml2assay | Source code |
| .parseEseVar | Source code |
| .parseFiletypeFromName | Source code |
| .parsePairedArg | Source code |
| .parseRegion | Source code |
| .parseRowAnn | Source code |
| .parseTopAnn | Source code |
| .prepAnnoEnrich | Source code |
| .prepTopAnn | Source code |
| .randomTiles | Source code |
| .reduceRleLists | Source code |
| .refinePeaks | Source code |
| .refragment | Source code |
| .resizeESE | Source code |
| .resizeNmatrix | Source code |
| .resizePeaks | Source code |
| .resizeWithin | Source code |
| .rleFC | Source code |
| .rleMedWhich | Source code |
| .strandedCovTable | Source code |
| .topNorm | Source code |
| .view2paddedAL | Source code |
| .viewl2gr | Source code |
| EnrichmentSE | Source code |
| TSSenrichment | Man page Source code |
| addAssayToESE | Man page Source code |
| annotateRegions | Man page Source code |
| bam2bw | Man page Source code |
| bamChrChunkApply | Man page Source code |
| breakStrings | Man page |
| bwNormFactors | Man page Source code |
| callPeaks | Man page Source code |
| clusterSignalMatrices | Man page Source code |
| estimateFragSize | Man page Source code |
| exampleDNAme | Man page |
| exampleESE | Man page |
| formatGenomicDist | Man page Source code |
| frag2bw | Man page Source code |
| fragSizesDist | Man page Source code |
| geneBodies | Man page |
| getCounts | Man page Source code |
| getCovStats | Man page Source code |
| getEmpiricalFDR | Man page Source code |
| getNormFactors | Man page Source code |
| getSignalMatrices | Man page Source code |
| importBedlike | Man page Source code |
| inject | Man page Source code |
| meltSignals | Man page Source code |
| mergeSignalMatrices | Man page Source code |
| ml2ESE | Man page Source code |
| motifFootprint | Man page Source code |
| plotCorFromCovStats | Man page Source code |
| plotCovStats | Man page Source code |
| plotEnrichedHeatmaps | Man page Source code |
| plotSignalTracks | Man page Source code |
| reduceWithResplit | Man page Source code |
| refragment | Man page Source code |
| regionCAT | Man page Source code |
| regionOverlaps | Man page Source code |
| regionUpset | Man page Source code |
| renormalizeBorders | Man page Source code |
| renormalizeSignalMatrices | Man page Source code |
| resizeMatrix | Man page Source code |
| showTrackInfo | Man page Source code |
| signal2Matrix | Man page Source code |
| signalsAcrossSamples | Man page Source code |
| tabixChrApply | Man page Source code |
| tileRle | Man page Source code |
| views2Matrix | Man page Source code |
