Create Copy-Number Plots using karyoploteR functionality
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Documentation for package ‘CopyNumberPlots’ version 1.25.0
Help Pages
| colByCopyNumber | colByCopyNumber |
| computeHclustPlotOrder | computeHclustPlotOrder |
| EnsemblStyle | EnsemblStyle |
| getBAFColumn | getBAFColumn |
| getChrColumn | getChrColumn |
| getColumn | getColumn |
| getCopyNumberColors | getCopyNumberColors |
| getCopyNumberColumn | getCopyNumberColumn |
| getEndColumn | getEndColumn |
| getIDColumn | getIDColumn |
| getLOHColumn | getLOHColumn |
| getLRRColumn | getLRRColumn |
| getPosColumn | getPosColumn |
| getSegmentValueColumn | getSegmentValueColumn |
| getStartColumn | getStartColumn |
| loadCopyNumberCalls | loadCopyNumberCalls |
| loadCopyNumberCallsCnmops | loadCopyNumberCallsCnmops |
| loadCopyNumberCallsCNVkit | loadCopyNumberCallsCNVkit |
| loadCopyNumberCallsDECoN | loadCopyNumberCallsDECoN |
| loadCopyNumberCallsDNAcopy | loadCopyNumberCallsDNAcopy |
| loadCopyNumberCallsPanelcnmops | loadCopyNumberCallsPanelcnmops |
| loadCopyNumberCallspennCNV | loadCopyNumberCallspennCNV |
| loadCopyNumberCallsSeg | loadCopyNumberCallsSeg |
| loadSNPData | loadSNPData |
| loadSNPDataDNAcopy | loadSNPDataDNAcopy |
| loadSNPDataFromVCF | loadSNPDataFromVCF |
| plotBAF | plotBAF |
| plotCopyNumberCalls | plotCopyNumberCalls |
| plotCopyNumberCallsAsLines | plotCopyNumberCallsAsLines |
| plotCopyNumberSummary | plotCopyNumberSummary |
| plotLRR | plotLRR |
| plotSingleCellCopyNumberCalls | plotSingleCellCopyNumberCalls |
| plotSingleCellCopyNumberSummary | plotSingleCellCopyNumberSummary |
| prepareLabels | prepareLabels |
| readHDF5Ztree | readHDF5Ztree |
| removeNAs | removeNAs |
| transformChr | transformChr |
| UCSCStyle | UCSCStyle |
| Ztree2Hclust | Ztree2Hclust |