To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("CNAnorm")

In most cases, you don't need to download the package archive at all.

CNAnorm

A normalization method for Copy Number Aberration in cancer samples

Bioconductor version: Release (3.0)

Performs ratio, GC content correction and normalization of data obtained using low coverage (one read every 100-10,000 bp) high troughput sequencing. It performs a "discrete" normalization looking for the ploidy of the genome. It will also provide tumour content if at least two ploidy states can be found.

Author: Stefano Berri <sberri at illumina.com>, Henry M. Wood <H.M.Wood at leeds.ac.uk>, Arief Gusnanto <a.gusnanto at leeds.ac.uk>

Maintainer: Stefano Berri <sberri at illumina.com>

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

Installation

To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("CNAnorm")

Documentation

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

browseVignettes("CNAnorm")

 

PDF CNAnorm.pdf
PDF   Reference Manual
Text   NEWS

Details

biocViews CopyNumberVariation, Coverage, DNASeq, GenomicVariation, Normalization, Sequencing, Software, WholeGenome
Version 1.12.0
In Bioconductor since BioC 2.9 (R-2.14)
License GPL-2
Depends R (>= 2.10.1), methods
Imports DNAcopy
Suggests
System Requirements
URL http://www.r-project.org
Depends On Me
Imports Me
Suggests Me

Package Archives

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

Package Source CNAnorm_1.12.0.tar.gz
Windows Binary CNAnorm_1.12.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) CNAnorm_1.12.0.tgz
Mac OS X 10.9 (Mavericks) CNAnorm_1.12.0.tgz
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