source("http://bioconductor.org/biocLite.R")
biocLite("DESeq2")

DESeq2

Differential gene expression analysis based on the negative binomial distribution

Bioconductor version: 2.13

Estimate variance-mean dependence in count data from high-throughput sequencing assays and test for differential expression based on a model using the negative binomial distribution

Author: Michael Love (MPIMG Berlin), Simon Anders, Wolfgang Huber (EMBL Heidelberg)

Maintainer: Michael Love <michaelisaiahlove at gmail.com>

Installation

To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("DESeq2")

Documentation

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

browseVignettes("DESeq2")

 

PDF	R Script	Analyzing RNA-Seq data with the "DESeq2" package
PDF		vst.pdf
PDF		Reference Manual
Text		NEWS

Details

biocViews	ChIPseq, DifferentialExpression, HighThroughputSequencing, RNAseq, SAGE, Software
Version	1.2.10
In Bioconductor since	BioC 2.12 (R-3.0)
License	GPL (>= 3)
Depends	GenomicRanges, IRanges, Rcpp (>= 0.10.1), RcppArmadillo (>= 0.3.4.4)
Imports	BiocGenerics(>= 0.7.5), methods, locfit, genefilter, RColorBrewer, lattice
Suggests	RUnit, Biobase, parathyroidSE, pasilla(>= 0.2.10), vsn, gplots, BiocStyle
System Requirements
URL
Depends On Me
Imports Me	HTSFilter, ReportingTools
Suggests Me	BiocGenerics, DiffBind, gage

Package Archives

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

Package Source	DESeq2_1.2.10.tar.gz
Windows Binary	DESeq2_1.2.10.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard)	DESeq2_1.2.10.tgz
Browse/checkout source	(username/password: readonly)
Package Downloads Report	Download Stats