API for broadinstitute/ichorCNA
A tool for estimating the fraction of tumor in ultra-low-pass whole genome sequencing (ULP-WGS) of cell-free DNA

Global functions
HMMsegment Source code
betapdflog Source code
completeLikelihoodFun Source code
computeBIC Source code
correctIntegerCN Source code
correctReadCounts Source code
dirichletpdf Source code
dirichletpdflog Source code
estimateMixWeightsParamMap Source code
estimateParamsMap Source code
estimatePrecisionParamMap Source code
excludeCentromere Source code
filterByMappabilityScore Source code
filterByTargetedSequences Source code
filterEmptyChr Source code
gammapdflog Source code
get2ComponentMixture Source code
get2and3ComponentMixture Source code
getDefaultParameters Source code
getGender Source code
getGenomeWidePositions Source code
getSeqInfo Source code
getTransitionMatrix Source code
ichorCNA Man page
ichorCNA-package Man page
keepChr Source code
loadReadCountsFromWig Source code
logRbasedCN Source code
normalize Source code
normalizeByPanelOrMatchedNormal Source code
outputHMM Source code
outputParametersToFile Source code
plotCNlogRByChr Source code
plotChrLines Source code
plotCorrectionGenomeWide Source code
plotGWSolution Source code
plotParam Source code
plotSolutions Source code
priorProbs Source code
runEM Source code
runViterbi Source code
segmentData Source code
selectFemaleChrXSolution Source code
setGenomeStyle Source code
stLikelihood Source code
tdistPDF Source code
wigToGRanges Source code
broadinstitute/ichorCNA documentation built on Aug. 23, 2019, 9:39 a.m.