DESeq

Digital gene expresion analysis based on the negative binomial distribution

Bioconductor version: 2.8

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: Simon Anders, EMBL Heidelberg <sanders at fs.tum.de>

Maintainer: Simon Anders <sanders at fs.tum.de>

To install this package, start R and enter:

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

To cite this package in a publication, start R and enter:

    citation("DESeq")

Documentation

PDF R Script Analysing RNA-Seq data with the "DESeq" package
PDF   Reference Manual

Details

biocViews HighThroughputSequencing, ChIPseq, RNAseq, SAGE, DifferentialExpression
Depends Biobase, locfit
Imports genefilter, geneplotter, methods
Suggests
System Requirements
License GPL (>= 3)
URL http://www-huber.embl.de/users/anders/DESeq/
Depends On Me
Imports Me ArrayExpressHTS, rnaSeqMap
Suggests Me
Version 1.4.1
Since Bioconductor 2.6 (R-2.11)

Package Downloads

Package Source DESeq_1.4.1.tar.gz
Windows Binary DESeq_1.4.1.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary DESeq_1.4.1.tgz
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