To install this package, start R and enter:
## try http:// if https:// URLs are not supported source("https://bioconductor.org/biocLite.R") biocLite("ADaCGH2")
In most cases, you don't need to download the package archive at all.
![]() ![]() |
Bioconductor version: 3.2
Analysis and plotting of array CGH data. Allows usage of Circular Binary Segementation, wavelet-based smoothing (both as in Liu et al., and HaarSeg as in Ben-Yaacov and Eldar), HMM, BioHMM, GLAD, CGHseg. Most computations are parallelized (either via forking or with clusters, including MPI and sockets clusters) and use ff for storing data.
Author: Ramon Diaz-Uriarte <rdiaz02 at gmail.com> and Oscar M. Rueda <rueda.om at gmail.com>. Wavelet-based aCGH smoothing code from Li Hsu <lih at fhcrc.org> and Douglas Grove <dgrove at fhcrc.org>. Imagemap code from Barry Rowlingson <B.Rowlingson at lancaster.ac.uk>. HaarSeg code from Erez Ben-Yaacov; downloaded from <http://www.ee.technion.ac.il/people/YoninaEldar/Info/software/HaarSeg.htm>.
Maintainer: Ramon Diaz-Uriarte <rdiaz02 at gmail.com>
Citation (from within R,
enter citation("ADaCGH2")
):
To install this package, start R and enter:
## try http:// if https:// URLs are not supported source("https://bioconductor.org/biocLite.R") biocLite("ADaCGH2")
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("ADaCGH2")
R Script | ADaCGH2 Overview | |
ADaCGH2-long-examples.pdf | ||
benchmarks.pdf | ||
Reference Manual | ||
Text | NEWS |
biocViews | CopyNumberVariants, Microarray, Software |
Version | 2.10.0 |
In Bioconductor since | BioC 2.7 (R-2.12) (5.5 years) |
License | GPL (>= 3) |
Depends | R (>= 2.15.0), parallel, ff |
Imports | bit, ffbase, DNAcopy, tilingArray, GLAD, waveslim, cluster, aCGH, snapCGH |
LinkingTo | |
Suggests | CGHregions, Cairo, limma |
SystemRequirements | |
Enhances | Rmpi |
URL | |
Depends On Me | |
Imports Me | |
Suggests Me | |
Build Report |
Follow Installation instructions to use this package in your R session.
Package Source | ADaCGH2_2.10.0.tar.gz |
Windows Binary | ADaCGH2_2.10.0.zip (32- & 64-bit) |
Mac OS X 10.6 (Snow Leopard) | ADaCGH2_2.10.0.tgz |
Mac OS X 10.9 (Mavericks) | ADaCGH2_2.10.0.tgz |
Subversion source | (username/password: readonly) |
Git source | https://github.com/Bioconductor-mirror/ADaCGH2/tree/release-3.2 |
Package Short Url | http://bioconductor.org/packages/ADaCGH2/ |
Package Downloads Report | Download Stats |
Documentation »
Bioconductor
R / CRAN packages and documentation
Support »
Please read the posting guide. Post questions about Bioconductor to one of the following locations: