plotSpliceDGE

<code>DGELRT</code> object produced by <code>diffSpliceDGE</code>.

character string, ID of the gene to plot.

geneid

column name of <code>lrt$genes</code> containing gene IDs. Defaults to <code>lrt$genecolname</code>.

genecolname

integer, if <code>geneid=NULL</code> then this ranked gene will be plotted.

rank

numeric, mark exons with false discovery rate less than this cutoff.


Plot relative log-fold changes by exons for the specified gene and highlight the significantly spliced exons.


Differential expression analysis of RNA-seq expression profiles with biological replication. Implements a range of statistical methodology based on the negative binomial distributions, including empirical Bayes estimation, exact tests, generalized linear models and quasi-likelihood tests. As well as RNA-seq, it be applied to differential signal analysis of other types of genomic data that produce counts, including ChIP-seq, SAGE and CAGE.

Yunshun Chen

edgeR

Empirical Analysis of Digital Gene Expression Data in R

plotSpliceDGE function

Plot relative log-fold changes by exons for the specified gene and highlight the significantly spliced exons.

plotSpliceDGE: Differential splicing plot

Description

Usage

Arguments

Value

Details

See Also