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 |

runFastMultiPCF | 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 |

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