DNAcopy: DNA copy number data analysis

Implements the circular binary segmentation (CBS) algorithm to segment DNA copy number data and identify genomic regions with abnormal copy number.

AuthorVenkatraman E. Seshan, Adam Olshen
Date of publicationNone
MaintainerVenkatraman E. Seshan <seshanv@mskcc.org>
LicenseGPL (>= 2)
Version1.48.0

View on Bioconductor

Files

DNAcopy/DESCRIPTION
DNAcopy/NAMESPACE
DNAcopy/R
DNAcopy/R/DNAcopyMethods.R DNAcopy/R/changepoints.R DNAcopy/R/exonsegment.R DNAcopy/R/getbdry.R DNAcopy/R/glFrequency.R DNAcopy/R/plotSample.R DNAcopy/R/segment.R DNAcopy/R/segmentp.R DNAcopy/R/segmentsummary.R DNAcopy/R/zoomIntoRegion.R DNAcopy/R/zzz.R
DNAcopy/build
DNAcopy/build/vignette.rds
DNAcopy/chrom-lengths
DNAcopy/data
DNAcopy/data/coriell.rda
DNAcopy/data/cytoBand.tab
DNAcopy/data/default.DNAcopy.bdry.R
DNAcopy/demo
DNAcopy/demo/00Index
DNAcopy/demo/DNAcopy.R
DNAcopy/inst
DNAcopy/inst/CHANGES
DNAcopy/inst/benchmark
DNAcopy/inst/benchmark/benchmark,20090610,segment.R
DNAcopy/inst/doc
DNAcopy/inst/doc/DNAcopy.R
DNAcopy/inst/doc/DNAcopy.Rnw
DNAcopy/inst/doc/DNAcopy.pdf
DNAcopy/man
DNAcopy/man/CNA.Rd DNAcopy/man/DNAcopy-internal.Rd DNAcopy/man/DNAcopy.Rd DNAcopy/man/coriell.Rd DNAcopy/man/cytoBand.Rd DNAcopy/man/exon.segment.Rd DNAcopy/man/getbdry.Rd DNAcopy/man/glFrequency.Rd DNAcopy/man/plot.DNAcopy.Rd DNAcopy/man/plotSample.Rd DNAcopy/man/segment.Rd DNAcopy/man/segments.p.Rd DNAcopy/man/segments.summary.Rd DNAcopy/man/smooth.CNA.Rd DNAcopy/man/subset.CNA.Rd DNAcopy/man/subset.DNAcopy.Rd DNAcopy/man/zoomIntoRegion.Rd
DNAcopy/src
DNAcopy/src/cbsWtstats.f
DNAcopy/src/cbststats.f
DNAcopy/src/changepoints-wtd.f
DNAcopy/src/changepoints.f
DNAcopy/src/esegment.f
DNAcopy/src/flchoose.c
DNAcopy/src/fphyper.c
DNAcopy/src/fpnorm.c
DNAcopy/src/getbdry.f
DNAcopy/src/prune.f
DNAcopy/src/rshared.c
DNAcopy/src/segmentp.f
DNAcopy/src/smoothCNA.f
DNAcopy/src/tailprobs.f
DNAcopy/tests
DNAcopy/tests/redundancy,20090610,segment.R
DNAcopy/vignettes
DNAcopy/vignettes/DNAcopy.Rnw
DNAcopy/vignettes/DNAcopy.bib

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.