DESeq2
This package is for version 3.10 of Bioconductor; for the stable, up-to-date release version, see DESeq2.
Differential gene expression analysis based on the negative binomial distribution
Bioconductor version: 3.10
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 [aut, cre], Constantin Ahlmann-Eltze [ctb], Simon Anders [aut, ctb], Wolfgang Huber [aut, ctb]
Maintainer: Michael Love <michaelisaiahlove at gmail.com>
citation("DESeq2")
):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("DESeq2")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("DESeq2")
Analyzing RNA-seq data with DESeq2 | HTML | R Script |
Reference Manual | ||
NEWS | Text |
Details
biocViews | Bayesian, ChIPSeq, Clustering, DifferentialExpression, GeneExpression, ImmunoOncology, Normalization, PrincipalComponent, RNASeq, Regression, Sequencing, Software, Transcription |
Version | 1.26.0 |
In Bioconductor since | BioC 2.12 (R-3.0) (11 years) |
License | LGPL (>= 3) |
Depends | S4Vectors(>= 0.23.18), IRanges, GenomicRanges, SummarizedExperiment(>= 1.1.6) |
Imports | BiocGenerics(>= 0.7.5), Biobase, BiocParallel, genefilter, methods, stats4, locfit, geneplotter, ggplot2, Hmisc, Rcpp (>= 0.11.0) |
System Requirements | |
URL | https://github.com/mikelove/DESeq2 |
See More
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | DESeq2_1.26.0.tar.gz |
Windows Binary | DESeq2_1.26.0.zip (32- & 64-bit) |
Mac OS X 10.11 (El Capitan) | DESeq2_1.26.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/DESeq2 |
Source Repository (Developer Access) | git clone [email protected]:packages/DESeq2 |
Bioc Package Browser | https://code.bioconductor.org/browse/DESeq2/ |
Package Short Url | https://bioconductor.org/packages/DESeq2/ |
Package Downloads Report | Download Stats |
Old Source Packages for BioC 3.10 | Source Archive |