DNAcopy
This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see DNAcopy.
DNA copy number data analysis
Bioconductor version: 3.9
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 "3.6") 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 | R Script | |
| Reference Manual |
Details
| biocViews | CopyNumberVariation, Microarray, Software |
| Version | 1.58.0 |
| In Bioconductor since | BioC 1.6 (R-2.1) or earlier (> 19 years) |
| License | GPL (>= 2) |
| Depends | |
| Imports | |
| System Requirements | |
| URL |
See More
| Suggests | |
| Linking To | |
| Enhances | |
| Depends On Me | CGHcall, cghMCR, Clonality, CRImage, PureCN, snapCGH |
| Imports Me | ADaCGH2, AneuFinder, ArrayTV, ChAMP, cn.farms, CNAnorm, CNVrd2, contiBAIT, conumee, CopywriteR, GWASTools, MDTS, MEDIPS, MinimumDistance, QDNAseq, rCGH, Repitools, sesame, snapCGH |
| Suggests Me | beadarraySNP, cn.mops, CopyNumberPlots, fastseg, genoset |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | DNAcopy_1.58.0.tar.gz |
| Windows Binary | DNAcopy_1.58.0.zip (32- & 64-bit) |
| Mac OS X 10.11 (El Capitan) | DNAcopy_1.58.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/DNAcopy |
| Source Repository (Developer Access) | git clone [email protected]: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 3.9 | Source Archive |