Man pages for CNVrd2
CNVrd2: a read depth-based method to detect and genotype complex common copy number variants from next generation sequencing data.
| calculateLDSNPandCNV | calculateLDSNPandCNV |
| ccl3l1data | Data of CCL3L1 gene (The 1000 Genomes Project) |
| clusteringCNVs-class | Class '"clusteringCNVs"' |
| CNVrd2-class | Class '"CNVrd2"' |
| CNVrd2-package | CNVrd2 |
| countReadInWindow | Obtain read counts in constant windows. |
| countReadInWindow-methods | Method 'countReadInWindow' |
| emnormalCNV | Implement the EM algorithm |
| emnormalCNV-methods | Method 'emnormalCNV' |
| fcgr3bMXL | MXL population data (The 1000 Genomes Project) |
| groupBayesianCNVs | groupBayesianCNVs |
| groupCNVs | Cluster segmentation scores into groups. |
| groupCNVs-methods | Method 'groupCNVs' |
| identifyPolymorphicRegion | Identity polymorphic regions. |
| identifyPolymorphicRegion-methods | Methods for Function 'identifyPolymorphicRegion' |
| numericOrNULL-class | Class '"numericOrNULL"' |
| plotCNVrd2 | Plot traces of samples. |
| plotCNVrd2-methods | Method 'plotCNVrd2' |
| plotPolymorphicRegion | Plot polymorphic regions. |
| plotPolymorphicRegion-methods | Methods for Function 'plotPolymorphicRegion' |
| searchGroupCNVs | Choose a number of CN groups |
| searchGroupCNVs-methods | Method 'searchGroupCNVs' |
| segmentSamples | Implement the segmentation process |
| segmentSamples-methods | Method 'segmentSamples' |
| segmentSamplesUsingPopInformation | Implement the segmentation process for multiple populations |
| segmentSamplesUsingPopInformation-methods | Method 'segmentSamplesUsingPopInformation' |
| vectorORfactor-class | Class '"vectorORfactor"' |
