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DNAcopy

DNA copy number data analysis

Bioconductor version: Release (3.17)

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

Author: Venkatraman E. Seshan, Adam Olshen

Maintainer: Venkatraman E. Seshan <seshanv at mskcc.org>

Citation (from within R, enter citation("DNAcopy")):

Installation

To install this package, start R (version "4.3") and enter: 

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("DNAcopy")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("DNAcopy")
DNAcopy PDF R Script
Reference Manual PDF

Details

biocViews CopyNumberVariation, Microarray, Software
Version 1.74.1
In Bioconductor since BioC 1.6 (R-2.1) or earlier (> 18 years)
License GPL (>= 2)
Depends
Imports
Linking To
Suggests
System Requirements
Enhances
URL
See More
Depends On Me CGHcall, cghMCR, Clonality, CRImage, PureCN
Imports Me ADaCGH2, AneuFinder, ChAMP, cn.farms, CNAnorm, CNVrd2, contiBAIT, conumee, CopywriteR, GWASTools, maftools, MDTS, MEDIPS, MethCP, MinimumDistance, QDNAseq, rCGH, Repitools, SCOPE, snapCGH
Suggests Me beadarraySNP, cn.mops, CopyNumberPlots, fastseg, nullranges, sesame
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package DNAcopy_1.74.1.tar.gz
Windows Binary DNAcopy_1.74.1.zip (64-bit only)
macOS Binary (x86_64) DNAcopy_1.74.1.tgz
macOS Binary (arm64) DNAcopy_1.74.1.tgz
Source Repository git clone https://git.bioconductor.org/packages/DNAcopy
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/DNAcopy
Bioc Package Browser https://code.bioconductor.org/browse/DNAcopy/
Package Short Url https://bioconductor.org/packages/DNAcopy/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.17 Source Archive