Man pages for sdchandra/CNAclinic
A Software Suite for Shallow Sequencing Copy Number Analysis

callData-CNAclinicData-methodCall segments as 'gain', 'loss' or 'neutral'
CNAclinicDataAn S4 class to contain the copy number, segmentation and...
combineData-CNAclinicData-CNAclinicData-methodCombine the slots of two CNAclinicData objects
exportDataExport data
getGeneInfoGet transcript and position information for NCBI Entrez gene...
optimalBinsizeAssess optimal genomic bin size to partition read counts.
plotMultiSampleData-CNAclinicData-methodPlots heat map of a cohort of samples
plotSampleData-CNAclinicData-methodplotSampleData
processForSegmentationProcess reads counts from BAM files to prepare input for...
runSegmentationRun up to 4 different copy number segmentation algorithms.
statsCNA-CNAclinicData-methodQuantify and quality check copy-number profiles.
subsetData-CNAclinicData-methodExtract data belonging to a subset of samples in a CNAclinic...
summSegments-CNAclinicData-methodSummarise segments from multiple algorithms at every genomic...
sdchandra/CNAclinic documentation built on Dec. 23, 2017, 7:27 p.m.