DEXSeq: Performs the differential exon usage test in a single command

Description Usage Arguments Value Examples

View source: R/core.R

Description

This function is a wrapper that calls the necessary functions to perform a differential exon usage test in a single command.

Usage

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  DEXSeq(object, 
    fullModel=design(object),
    reducedModel = ~ sample + exon, 
    BPPARAM=MulticoreParam(workers=1), 
    fitExpToVar="condition", quiet=TRUE )

Arguments

object

An DEXSeqDataSet object.

fullModel

The full model formula

reducedModel

Null model formula.

BPPARAM

A "BiocParallelParam" instance. See ?bplapply for details.

fitExpToVar

A variable name contained in the sample data. The expression values will be fitted to this variable using the the formula " ~ sample + fitExpToVar * exon".

quiet

Whether to print messages at each step

Value

A DEXSeqResults object.

Examples

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  ## Not run: 
      data(pasillaDEXSeqDataSet, package="pasilla")
      dxr <- DEXSeq( dxd )
  
## End(Not run)

areyesq89/DEXSeq documentation built on June 26, 2020, 2:31 a.m.