11.RNAseq

This page gives an overview of the LIMMA functions available to analyze RNA-seq data.<dl>
<dt> <code><a rd-options="" href="/link/voom?package=limma&version=3.22.7" data-mini-rdoc="limma::voom">voom</a></code> </dt><dd>
	Transform RNA-seq or ChIP-seq counts to log counts per million (log-cpm) with associated precision weights.
	After this tranformation, RNA-seq or ChIP-seq data can be analyzed using the same functions as would be used for microarray data.</dd></dl>
<dt> <code><a rd-options="" href="/link/diffSplice?package=limma&version=3.22.7" data-mini-rdoc="limma::diffSplice">diffSplice</a></code> </dt><dd>
	Test for differential splicing of exons between experimental conditions.</dd>
<dt> <code><a rd-options="" href="/link/topSplice?package=limma&version=3.22.7" data-mini-rdoc="limma::topSplice">topSplice</a></code> </dt><dd>
	Show a data.frame of top results from <code>diffSplice</code>.</dd>
<dt> <code><a rd-options="" href="/link/plotSplice?package=limma&version=3.22.7" data-mini-rdoc="limma::plotSplice">plotSplice</a></code> </dt><dd>
	Plot results from <code>diffSplice</code>.</dd>

documentation

Data analysis, linear models and differential expression for microarray data.

Gordon Smyth

limma

Linear Models for Microarray Data

11.RNAseq function

This page gives an overview of the LIMMA functions available to analyze RNA-seq data.

<dl>
<dt> <code><a rd-options='' href='voom'>voom</a></code> </dt><dd>
	Transform RNA-seq or ChIP-seq counts to log counts per million (log-cpm) with associated precision weights.
	After this tranformation, RNA-seq or ChIP-seq data can be analyzed using the same functions as would be used for microarray data.</dd>


<dt> <code><a rd-options='' href='diffSplice'>diffSplice</a></code> </dt><dd>
	Test for differential splicing of exons between experimental conditions.</dd>


<dt> <code><a rd-options='' href='topSplice'>topSplice</a></code> </dt><dd>
	Show a data.frame of top results from <code>diffSplice</code>.</dd>


<dt> <code><a rd-options='' href='plotSplice'>plotSplice</a></code> </dt><dd>
	Plot results from <code>diffSplice</code>.</dd>

</dl>

11.RNAseq: Topic: Analysis of RNA-seq Data

Description

Arguments

References