API for copynumber
Segmentation of single- and multi-track copy number data by penalized least squares regression.
| Global functions | |
|---|---|
| BAF | Man page |
| PottsCompact | Source code |
| addArmlines | Source code |
| addChromlines | Source code |
| addToFreqPlot | Source code |
| addToPlot | Source code |
| adjustPos | Source code |
| adjustSeg | Source code |
| adjustSegPos | Source code |
| aspcf | Man page Source code |
| aspcfpart | Source code |
| c.lines | Source code |
| callAberrations | Man page Source code |
| checkAndRetrievePlotInput | Source code |
| checkChrom | Source code |
| checkSampleID | Source code |
| checkSegments | Source code |
| checkWinsoutliers | Source code |
| chromMax | Source code |
| chromPattern | Source code |
| chromosomeAberration | Source code |
| chromosomeFreq | Source code |
| chromosomeHeat | Source code |
| circ | Source code |
| colorSetup | Source code |
| compact | Source code |
| compactMulti | Source code |
| connectSeg | Source code |
| convert.unit | Source code |
| doMultiPCF | Source code |
| draw.roundEdge | Source code |
| drawStalk | Source code |
| exactPcf | Source code |
| expandMulti | Source code |
| fastAspcf | Source code |
| filterMarkS4 | Source code |
| findEst | Source code |
| findMarks | Source code |
| findMarksMulti | Source code |
| findNN | Source code |
| framedim | Source code |
| genomeAberration | Source code |
| genomeFreq | Source code |
| genomeHeat | Source code |
| get.seglim | Source code |
| get.xticks | Source code |
| get.yticks | Source code |
| getArmandChromStop | Source code |
| getArms | Source code |
| getCol | Source code |
| getCumBin | Source code |
| getFilename | Source code |
| getFreqData | Source code |
| getFreqPlotParameters | Source code |
| getGRangesFormat | Man page Source code |
| getGlobPos | Source code |
| getGlobal.xlim | Source code |
| getHeatParameters | Source code |
| getMad | Source code |
| getPlotParameters | Source code |
| getPlotSymbols | Source code |
| getUnisegFormat | Source code |
| getx | Source code |
| handleMissing | Source code |
| imp.constant | Source code |
| imp.pcf | Source code |
| imputeMissing | Man page Source code |
| interpolate.pcf | Man page Source code |
| is.multiseg | Source code |
| logR | Man page |
| lymphoma | Man page |
| madWins | Source code |
| markMultiPotts | Source code |
| markWithPotts | Source code |
| medianFilter | Source code |
| micma | Man page |
| multiPCFcompact | Source code |
| multipcf | Man page Source code |
| numericArms | Source code |
| numericChrom | Source code |
| pcf | Man page Source code |
| pcfPlain | Man page Source code |
| pcfWins | Source code |
| plotAberration | Man page Source code |
| plotAllele | Man page Source code |
| plotChrom | Man page Source code |
| plotCircle | Man page Source code |
| plotFreq | Man page Source code |
| plotGamma | Man page Source code |
| plotGenome | Man page Source code |
| plotHeatmap | Man page Source code |
| plotIdeogram | Source code |
| plotObs | Source code |
| plotSample | Man page Source code |
| plotSegments | Source code |
| psi | Source code |
| pullOutContent | Source code |
| runFastPcf | Source code |
| runMultiPcfSubset | Source code |
| runPcfSubset | Source code |
| sawMarkM | Source code |
| selectFastMultiPcf | Source code |
| selectFastPcf | Source code |
| selectSegments | Man page Source code |
| separateChrom | Source code |
| subset.abe | Source code |
| subset.length | Source code |
| subset.var | Source code |
| subsetData | Man page Source code |
| subsetSegments | Man page Source code |
| updateFreqParameters | Source code |
| updatePlotParameters | Source code |
| winsorize | Man page Source code |
