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  • Committer: Package Import Robot
  • Author(s): Andreas Tille
  • Date: 2013-12-28 17:17:25 UTC
  • mfrom: (1.1.2)
  • Revision ID: package-import@ubuntu.com-20131228171725-polmzo8go4m371c6
Tags: 2.4.1-1
* New upstream version
* debian/rules: Remove useless creation of ${R-Depends}
* debian/control: Versioned Build-Depends: r-base-dev (>= 3.0)
* debian/README.test: add hint how to test the package

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man/fpkmMatrix.Rd
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\name{fpkmMatrix}
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\alias{fpkmMatrix}
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\alias{fpkmMatrix,CuffData-method}
 
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\alias{fpkmMatrix,CuffFeatureSet-method}
 
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\alias{repFpkmMatrix}
 
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\alias{repFpkmMatrix,CuffData-method}
 
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\alias{repFpkmMatrix,CuffFeatureSet-method}
 
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%- Also NEED an '\alias' for EACH other topic documented here.
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\title{
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fpkmMatrix
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}
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\description{
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Retrieve FPKM values as gene by condition matrix
 
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Retrieve FPKM values as gene by condition (fpkmMatrix) or gene by replicate (repFpkmMatrix) matrix
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}
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\usage{
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\S4method{fpkmMatrix}{CuffData}(object)
 
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\S4method{fpkmMatrix}{CuffData}(object,fullnames=FALSE,sampleIdList)
 
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\S4method{repFpkmMatrix}{CuffData}(object,fullnames=FALSE,repIdList)
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}
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\arguments{
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  \item{object}{
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An object of class ('CuffData','CuffFeatureSet','CuffGeneSet','CuffGene',or 'CuffFeature')
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}
 
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  \item{fullnames}{
 
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A logical value whether or not to concatenate gene_short_name and tracking_id values (easier to read labels)
 
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}
 
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  \item{sampleIdList}{
 
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A vector of sample names to subset the resulting matrix.
 
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}
 
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  \item{repIdList}{
 
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A vector of sample names to subset the resulting matrix.
 
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}
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}
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\details{
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None.
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\examples{
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        data(sampleData)
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        fpkmMatrix(sampleGeneSet)
 
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        repFpkmMatrix(sampleGeneSet)
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}