To install this package, start R and enter:
## try http:// if https:// URLs are not supported source("https://bioconductor.org/biocLite.R") biocLite("HMMcopy")
In most cases, you don't need to download the package archive at all.
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Bioconductor version: 3.2
Corrects GC and mappability biases for readcounts (i.e. coverage) in non-overlapping windows of fixed length for single whole genome samples, yielding a rough estimate of copy number for furthur analysis. Designed for rapid correction of high coverage whole genome tumour and normal samples.
Author: Daniel Lai, Gavin Ha, Sohrab Shah
Maintainer: Daniel Lai <jujubix at cs.ubc.ca>, Gavin Ha <gha at bccrc.ca>, Sohrab Shah <sshah at bccrc.ca>
Citation (from within R,
enter citation("HMMcopy")
):
To install this package, start R and enter:
## try http:// if https:// URLs are not supported source("https://bioconductor.org/biocLite.R") biocLite("HMMcopy")
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("HMMcopy")
HMMcopy | ||
Reference Manual |
biocViews | CopyNumberVariation, Microarray, Preprocessing, Sequencing, Software, Visualization |
Version | 1.12.0 |
In Bioconductor since | BioC 2.11 (R-2.15) (3.5 years) |
License | GPL-3 |
Depends | R (>= 2.10.0), IRanges(>= 1.4.16), geneplotter(>= 1.24.0) |
Imports | |
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Build Report |
Follow Installation instructions to use this package in your R session.
Package Source | HMMcopy_1.12.0.tar.gz |
Windows Binary | HMMcopy_1.12.0.zip (32- & 64-bit) |
Mac OS X 10.6 (Snow Leopard) | HMMcopy_1.12.0.tgz |
Mac OS X 10.9 (Mavericks) | HMMcopy_1.12.0.tgz |
Subversion source | (username/password: readonly) |
Git source | https://github.com/Bioconductor-mirror/HMMcopy/tree/release-3.2 |
Package Short Url | http://bioconductor.org/packages/HMMcopy/ |
Package Downloads Report | Download Stats |
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