DESeq2
Differential gene expression analysis based on the negative binomial distribution
Bioconductor version: Release (3.19)
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], Kwame Forbes [ctb], Simon Anders [aut, ctb], Wolfgang Huber [aut, ctb], RADIANT EU FP7 [fnd], NIH NHGRI [fnd], CZI [fnd]
Maintainer: Michael Love <michaelisaiahlove at gmail.com>
citation("DESeq2")
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Installation
To install this package, start R (version "4.4") 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 | 1.44.0 |
In Bioconductor since | BioC 2.12 (R-3.0) (11.5 years) |
License | LGPL (>= 3) |
Depends | S4Vectors(>= 0.23.18), IRanges, GenomicRanges, SummarizedExperiment(>= 1.1.6) |
Imports | BiocGenerics(>= 0.7.5), Biobase, BiocParallel, matrixStats, methods, stats4, locfit, ggplot2 (>= 3.4.0), Rcpp (>= 0.11.0), MatrixGenerics |
System Requirements | |
URL | https://github.com/thelovelab/DESeq2 |
See More
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | DESeq2_1.44.0.tar.gz |
Windows Binary | DESeq2_1.44.0.zip (64-bit only) |
macOS Binary (x86_64) | DESeq2_1.44.0.tgz |
macOS Binary (arm64) | DESeq2_1.44.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/DESeq2 |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/DESeq2 |
Bioc Package Browser | https://code.bioconductor.org/browse/DESeq2/ |
Package Short Url | https://bioconductor.org/packages/DESeq2/ |
Package Downloads Report | Download Stats |