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This package is for version 2.12 of Bioconductor;
for the stable, up-to-date release version, see
ADaCGH2.
Analysis of data from aCGH experiments using parallel computing and ff objects
Bioconductor version: 2.12
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.
Author: Ramon Diaz-Uriarte <rdiaz02 at gmail.com>, 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 <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")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("ADaCGH2")
Documentation
To view documentation for the version of this package installed
in your system, start R and enter:
browseVignettes("ADaCGH2")
Details
| biocViews | CopyNumberVariants, Microarray, Software |
| Version | 1.10.0 |
| In Bioconductor since | BioC 2.7 (R-2.12) (5.5 years) |
| License | GPL (>= 3) |
| Depends | R (>= 2.11.0), tilingArray, aCGH, waveslim, cluster, snapCGH, snowfall, ff |
| Imports | |
| LinkingTo | |
| Suggests | GLAD, DNAcopy, CGHregions, rlecuyer |
| SystemRequirements | |
| Enhances | Rmpi, multicore |
| URL | launchpad.net/adacgh wavicgh.bioinfo.cnio.es |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
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Installation instructions to use this
package in your R session.
Read more here: Source link
