Man pages for CNVrd2
CNVrd2: a read depth-based method to detect and genotype complex common copy number variants from next generation sequencing data.

calculateLDSNPandCNVcalculateLDSNPandCNV
ccl3l1dataData of CCL3L1 gene (The 1000 Genomes Project)
clusteringCNVs-classClass '"clusteringCNVs"'
CNVrd2-classClass '"CNVrd2"'
CNVrd2-packageCNVrd2
countReadInWindowObtain read counts in constant windows.
countReadInWindow-methodsMethod 'countReadInWindow'
emnormalCNVImplement the EM algorithm
emnormalCNV-methodsMethod 'emnormalCNV'
fcgr3bMXLMXL population data (The 1000 Genomes Project)
groupBayesianCNVsgroupBayesianCNVs
groupCNVsCluster segmentation scores into groups.
groupCNVs-methodsMethod 'groupCNVs'
identifyPolymorphicRegionIdentity polymorphic regions.
identifyPolymorphicRegion-methodsMethods for Function 'identifyPolymorphicRegion'
numericOrNULL-classClass '"numericOrNULL"'
plotCNVrd2Plot traces of samples.
plotCNVrd2-methodsMethod 'plotCNVrd2'
plotPolymorphicRegionPlot polymorphic regions.
plotPolymorphicRegion-methodsMethods for Function 'plotPolymorphicRegion'
searchGroupCNVsChoose a number of CN groups
searchGroupCNVs-methodsMethod 'searchGroupCNVs'
segmentSamplesImplement the segmentation process
segmentSamples-methodsMethod 'segmentSamples'
segmentSamplesUsingPopInformationImplement the segmentation process for multiple populations
segmentSamplesUsingPopInformation-methodsMethod 'segmentSamplesUsingPopInformation'
vectorORfactor-classClass '"vectorORfactor"'
CNVrd2 documentation built on Nov. 17, 2017, noon