source("http://bioconductor.org/biocLite.R")
biocLite("CNVrd2")

CNVrd2

CNVrd2: a read depth-based method to detect and genotype complex common copy number variants from next generation sequencing data.

Bioconductor version: 2.13

CNVrd2 uses next-generation sequencing data to measure human gene copy number for multiple samples, indentify SNPs tagging copy number variants and detect copy number polymorphic genomic regions.

Author: Hoang Tan Nguyen, Tony R Merriman and MA Black

Maintainer: Hoang Tan Nguyen <hoangtannguyenvn at gmail.com>

Installation

To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("CNVrd2")

Documentation

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

browseVignettes("CNVrd2")

 

PDF	R Script	A Markdown Vignette with knitr
PDF		Reference Manual

Details

biocViews	CNV, High Throughput Sequencing, SNP., Software
Version	1.0.0
In Bioconductor since	BioC 2.13 (R-3.0)
License	GPL-2
Depends	R (>= 3.0.0), DNAcopy, methods, Rsamtools, VariantAnnotation, parallel, rjags, ggplot2
Imports	IRanges
Suggests	knitr
System Requirements
URL	https://github.com/hoangtn/CNVrd2
Depends On Me
Imports Me
Suggests Me

Package Archives

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

Package Source	CNVrd2_1.0.0.tar.gz
Windows Binary	CNVrd2_1.0.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard)	CNVrd2_1.0.0.tgz
Browse/checkout source	(username/password: readonly)
Package Downloads Report	Download Stats