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DEXSeq (version 1.18.4)

testForDEU: Test for Differential Exon Usage.

Description

This will perform a likelihood ratio test for differential exon usage. Internally, it calls the DESeq2 function nbinomLRT.

Usage

testForDEU( object,  fullModel = design(object),  reducedModel = ~ sample + exon,  BPPARAM=SerialParam() )

Arguments

object
A DEXSeqDataSet object.
fullModel
The full model formula
reducedModel
Null model formula.
BPPARAM
A "BiocParallelParam" instance. See ?bplapply for details.

Value

A DEXSeqDataSet with slots filled with information about the test.

Details

The information of the variables of the formulas should be present in the colData of the DEXSeqDataSet object.

Examples

Run this code

  data(pasillaDEXSeqDataSet, package="pasilla")
  dxd <- estimateSizeFactors( dxd )
  dxd <- estimateDispersions( dxd )
  dxd <- testForDEU( dxd )

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