Files in bernatgel/CopyNumberPlots
Create Copy-Number Plots using karyoploteR functionality
.Rbuildignore
.gitignore
DESCRIPTION
NAMESPACE
NEWS
R/colByCopyNumber.R
R/getCopyNumberColors.R
R/loadCopyNumberCalls.R
R/loadCopyNumberCallsCNVkit.R
R/loadCopyNumberCallsCnmops.R
R/loadCopyNumberCallsDECoN.R
R/loadCopyNumberCallsDNAcopy.R
R/loadCopyNumberCallsPanelcnmops.R
R/loadCopyNumberCallsPennCNV.R
R/loadCopyNumberCallsSeg.R
R/loadSNPData.DNAcopy.R
R/loadSNPData.R
R/loadSNPDataFromVCF.R
R/plotBAF.R
R/plotCopyNumberCalls.R
R/plotCopyNumberCallsAsLines.R
R/plotCopyNumberSummary.R
R/plotLRR.R
R/plotSingleCellCopyNumberCalls.R
R/plotSingleCellCopyNumberSummary.R
R/utils.R
README.md
inst/extdata/CNVkit_output.cnr
inst/extdata/CNVkit_output.cns
inst/extdata/DECoN_output.txt
inst/extdata/DNACopy_output.seg
inst/extdata/S1.rawdata.txt
inst/extdata/S1.segments.txt
inst/extdata/S2.rawdata.txt
inst/extdata/S2.segments.txt
inst/extdata/S3.rawdata.txt
inst/extdata/S3.segments.txt
inst/extdata/SNP_example_data.csv
inst/extdata/cn.mops.segmentation.csv
inst/extdata/example.vcf.gz
inst/extdata/example.vcf.gz.tbi
inst/extdata/pennCNV.rawcnv
inst/extdata/snp.data_test.csv
inst/extdata/snp.data_test2.csv
man/EnsemblStyle.Rd
man/UCSCStyle.Rd
man/Ztree2Hclust.Rd
man/colByCopyNumber.Rd
man/computeHclustPlotOrder.Rd
man/getBAFColumn.Rd
man/getChrColumn.Rd
man/getColumn.Rd
man/getCopyNumberColors.Rd
man/getCopyNumberColumn.Rd
man/getEndColumn.Rd
man/getIDColumn.Rd
man/getLOHColumn.Rd
man/getLRRColumn.Rd
man/getPosColumn.Rd
man/getSegmentValueColumn.Rd
man/getStartColumn.Rd
man/loadCopyNumberCalls.Rd
man/loadCopyNumberCallsCNVkit.Rd
man/loadCopyNumberCallsCnmops.Rd
man/loadCopyNumberCallsDECoN.Rd
man/loadCopyNumberCallsDNAcopy.Rd
man/loadCopyNumberCallsPanelcnmops.Rd
man/loadCopyNumberCallsSeg.Rd
man/loadCopyNumberCallspennCNV.Rd
man/loadSNPData.Rd
man/loadSNPDataDNAcopy.Rd
man/loadSNPDataFromVCF.Rd
man/plotBAF.Rd
man/plotCopyNumberCalls.Rd
man/plotCopyNumberCallsAsLines.Rd
man/plotCopyNumberSummary.Rd
man/plotLRR.Rd
man/plotSingleCellCopyNumberCalls.Rd
man/plotSingleCellCopyNumberSummary.Rd
man/prepareLabels.Rd
man/readHDF5Ztree.Rd
man/removeNAs.Rd
man/transformChr.Rd
tests/testthat.R
tests/testthat/test_utils.R
vignettes/CopyNumberPlots.Rmd
