nbkd.sf


      The 'size' argument (see <code><a rd-options="" href="/link/dnbinom?package=DESeq&version=1.24.0" data-mini-rdoc="DESeq::dnbinom">dnbinom</a></code>), i.e., the reciprocal of
      the dispersion.



A distribution family for use with <code><a rd-options="" href="/link/glm?package=DESeq&version=1.24.0" data-mini-rdoc="DESeq::glm">glm</a></code>. It describes a negative binomial
(as <code>negative.binomial</code> in the MASS package), but with a special link function, namely
eta[i] = log( mu[i] / sf[i] ), i.e., each count value is divided by its size factor before
the log is taken. This is used internally by <code><a rd-options="" href="/link/fitNbinomGLMs?package=DESeq&version=1.24.0" data-mini-rdoc="DESeq::fitNbinomGLMs">fitNbinomGLMs</a></code>.


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

Simon Anders

DESeq

Differential gene expression analysis based on the negative
binomial distribution

nbkd.sf function

The 'size' argument (see <code><a href="dnbinom" rd-options="">dnbinom</a></code>), i.e., the reciprocal of
      the dispersion.

A distribution family for use with <code><a href="glm" rd-options="">glm</a></code>. It describes a negative binomial
(as <code>negative.binomial</code> in the MASS package), but with a special link function, namely
eta[i] = log( mu[i] / sf[i] ), i.e., each count value is divided by its size factor before
the log is taken. This is used internally by <code><a href="fitNbinomGLMs" rd-options="">fitNbinomGLMs</a></code>.

nbkd.sf: GLM family for a negative binomial with known dispersion and log link with size factors

Description

Usage

Arguments

Value