DESeq2-package


The main functions for differential analysis are <code><a rd-options="" href="/link/DESeq?package=DESeq2&version=1.12.3" data-mini-rdoc="DESeq2::DESeq">DESeq</a></code> and
<code><a rd-options="" href="/link/results?package=DESeq2&version=1.12.3" data-mini-rdoc="DESeq2::results">results</a></code>. See the examples at <code><a rd-options="" href="/link/DESeq?package=DESeq2&version=1.12.3" data-mini-rdoc="DESeq2::DESeq">DESeq</a></code> for basic analysis steps.
Two transformations offered for count data are
the "regularized logarithm", <code><a rd-options="" href="/link/rlog?package=DESeq2&version=1.12.3" data-mini-rdoc="DESeq2::rlog">rlog</a></code>,
and <code><a rd-options="" href="/link/varianceStabilizingTransformation?package=DESeq2&version=1.12.3" data-mini-rdoc="DESeq2::varianceStabilizingTransformation">varianceStabilizingTransformation</a></code>.
For more detailed information on usage, see the package vignette, by typing
<code>vignette("DESeq2")</code>, or the workflow linked to on the first page
of the vignette. All support questions should be posted to the Bioconductor
support site: <a href="http://support.bioconductor.org">http://support.bioconductor.org</a>.


package

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.

Michael Love

DESeq2

Differential gene expression analysis based on the negative
binomial distribution

DESeq2-package function

The main functions for differential analysis are <code><a href="DESeq" rd-options="">DESeq</a></code> and
<code><a href="results" rd-options="">results</a></code>. See the examples at <code><a href="DESeq" rd-options="">DESeq</a></code> for basic analysis steps.
Two transformations offered for count data are
the "regularized logarithm", <code><a href="rlog" rd-options="">rlog</a></code>,
and <code><a href="varianceStabilizingTransformation" rd-options="">varianceStabilizingTransformation</a></code>.
For more detailed information on usage, see the package vignette, by typing
<code>vignette("DESeq2")</code>, or the workflow linked to on the first page
of the vignette. All support questions should be posted to the Bioconductor
support site: <url>http://support.bioconductor.org</url>.

DESeq2-package: DESeq2 package for differential analysis of count data

Description

Arguments

References