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To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("CNAnorm")
In most cases, you don't need to download the package archive at all.
CNAnorm
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A normalization method for Copy Number Aberration in cancer samples
Bioconductor version: Release (3.5)
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:
## try http:// if https:// URLs are not supported
source("https://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")
| R Script | CNAnorm.pdf | |
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | CopyNumberVariation, Coverage, DNASeq, GenomicVariation, Normalization, Sequencing, Software, WholeGenome |
| Version | 1.22.1 |
| In Bioconductor since | BioC 2.9 (R-2.14) (6 years) |
| License | GPL-2 |
| Depends | R (>= 2.10.1), methods |
| Imports | DNAcopy |
| LinkingTo | |
| Suggests | |
| SystemRequirements | |
| Enhances | |
| URL | http://www.r-project.org |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | CNAnorm_1.22.1.tar.gz |
| Windows Binary | CNAnorm_1.22.1.zip (32- & 64-bit) |
| Mac OS X 10.11 (El Capitan) | CNAnorm_1.22.1.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/CNAnorm |
| Package Short Url | http://bioconductor.org/packages/CNAnorm/ |
| Package Downloads Report | Download Stats |
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