Files in CopyNumberPlots

Create Copy-Number Plots using karyoploteR functionality

README.md

NEWS

NAMESPACE

DESCRIPTION

build/vignette.rds

R/plotSingleCellCopyNumberSummary.R R/plotCopyNumberCalls.R R/plotLRR.R R/plotSingleCellCopyNumberCalls.R R/utils.R R/loadSNPData.DNAcopy.R R/loadCopyNumberCallsDNAcopy.R R/loadCopyNumberCallsPanelcnmops.R R/plotBAF.R R/plotCopyNumberCallsAsLines.R R/loadCopyNumberCallsSeg.R R/loadCopyNumberCallsCNVkit.R R/loadSNPData.R R/loadCopyNumberCallsDECoN.R R/loadSNPDataFromVCF.R R/loadCopyNumberCalls.R R/getCopyNumberColors.R R/loadCopyNumberCallsCnmops.R R/plotCopyNumberSummary.R R/colByCopyNumber.R R/loadCopyNumberCallsPennCNV.R vignettes/CopyNumberPlots.Rmd man/loadSNPDataFromVCF.Rd man/getEndColumn.Rd man/getLOHColumn.Rd man/readHDF5Ztree.Rd man/getChrColumn.Rd man/loadCopyNumberCallsDNAcopy.Rd man/getColumn.Rd man/loadCopyNumberCallspennCNV.Rd man/plotCopyNumberCalls.Rd man/transformChr.Rd man/loadSNPData.Rd man/loadCopyNumberCallsSeg.Rd man/loadCopyNumberCallsCNVkit.Rd man/plotCopyNumberCallsAsLines.Rd man/prepareLabels.Rd man/EnsemblStyle.Rd man/getLRRColumn.Rd man/getSegmentValueColumn.Rd man/computeHclustPlotOrder.Rd man/colByCopyNumber.Rd man/getIDColumn.Rd man/getCopyNumberColumn.Rd man/getBAFColumn.Rd man/UCSCStyle.Rd man/plotSingleCellCopyNumberSummary.Rd man/removeNAs.Rd man/plotCopyNumberSummary.Rd man/loadCopyNumberCalls.Rd man/Ztree2Hclust.Rd man/getCopyNumberColors.Rd man/loadCopyNumberCallsDECoN.Rd man/getStartColumn.Rd man/plotSingleCellCopyNumberCalls.Rd man/loadCopyNumberCallsCnmops.Rd man/loadCopyNumberCallsPanelcnmops.Rd man/loadSNPDataDNAcopy.Rd man/getPosColumn.Rd man/plotBAF.Rd man/plotLRR.Rd tests/testthat.R tests/testthat/test_utils.R inst/doc/CopyNumberPlots.R inst/doc/CopyNumberPlots.Rmd

inst/doc/CopyNumberPlots.html

inst/extdata/cn.mops.segmentation.csv

inst/extdata/DNACopy_output.seg

inst/extdata/S3.segments.txt

inst/extdata/S2.rawdata.txt

inst/extdata/S2.segments.txt

inst/extdata/DECoN_output.txt

inst/extdata/snp.data_test2.csv

inst/extdata/SNP_example_data.csv

inst/extdata/snp.data_test.csv

inst/extdata/S3.rawdata.txt

inst/extdata/pennCNV.rawcnv

inst/extdata/example.vcf.gz.tbi

inst/extdata/example.vcf.gz

inst/extdata/CNVkit_output.cns

inst/extdata/S1.segments.txt

inst/extdata/S1.rawdata.txt

CopyNumberPlots documentation built on Nov. 8, 2020, 6:51 p.m.