CopywriteR: Copy number information from targeted sequencing using off-target reads
Version 2.8.0

CopywriteR extracts DNA copy number information from targeted sequencing by utiizing off-target reads. It allows for extracting uniformly distributed copy number information, can be used without reference, and can be applied to sequencing data obtained from various techniques including chromatin immunoprecipitation and target enrichment on small gene panels. Thereby, CopywriteR constitutes a widely applicable alternative to available copy number detection tools.

AuthorThomas Kuilman
Bioconductor views CopyNumberVariation Coverage ExomeSeq Preprocessing TargetedResequencing Visualization
Date of publicationNone
MaintainerThomas Kuilman <t.kuilman@nki.nl>
LicenseGPL-2
Version2.8.0
URL https://github.com/PeeperLab/CopywriteR
Package repositoryView on Bioconductor
InstallationInstall the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("CopywriteR")

Popular man pages

CopywriteR: CopywriteR: ENhanced COpy number Detection from Exome Reads
plotCNA: CopywriteR: ENhanced COpy number Detection from Exome Reads
preCopywriteR: CopywriteR: DNA copy number detection from off-target...
See all...

All man pages Function index File listing

Man pages

CopywriteR: CopywriteR: ENhanced COpy number Detection from Exome Reads
plotCNA: CopywriteR: ENhanced COpy number Detection from Exome Reads
preCopywriteR: CopywriteR: DNA copy number detection from off-target...

Functions

CopywriteR Man page Source code
list.files Man page
peakCutoff Source code
plotCNA Man page Source code
preCopywriteR Man page Source code
s.wholenumber Source code
tng Source code
wrap Source code

Files

DESCRIPTION
NAMESPACE
NEWS
R
R/CopywriteR.R
R/plotCNA.R
R/preCopywriteR.R
R/private.R
build
build/vignette.rds
inst
inst/doc
inst/doc/CopywriteR.R
inst/doc/CopywriteR.Rnw
inst/doc/CopywriteR.pdf
man
man/CopywriteR.Rd
man/plotCNA.Rd
man/preCopywriteR.Rd
vignettes
vignettes/CopywriteR.Rnw
vignettes/CopywriteR.bib
CopywriteR documentation built on May 20, 2017, 9:30 p.m.

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