Analysis of Copy Number Signatures
addPloidyData
checkCompOverlap
compareExposures
createSigs
determineNumSigs
detSigNumPipeline
diffCompSigSim
extractCNFeats
featureFuncs
findExposures
fitComponent
fitModels
generateSCM
matchSigs
plotComp
plotComps
plotScm
plotSegs
plotSig
plotSigExposure
plotSigExposureMat
plotSigMat
plotSigs
postProb
readSegs
reducePeaks
remapResults
runPipeline
segStats
sigSim
smoothSegs
sumOfPosteriors
validateSegData
A workflow to generate and analyze signatures based on copy number data using non-negative matrix factorization (NMF) in an approach similar to that used in mutational signatures. It can be used to extract features from Copy number segment data and use that to find a subset of copy number signatures which can be further used to correlate with other relevant data. For more on 'NMF' see Gaujoux (2013) <doi:10.1186/1471-2105-11-367>.