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Viewing changes to man/csDensity.Rd

  • 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/csDensity.Rd
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Creates a smoothed density plot, by sample, for log10 FPKM values from a cuffdiff run.
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}
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\usage{
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\S4method{csDensity}{CuffData}(object, logMode=TRUE, pseudocount=1.0, labels, features=FALSE, ...)
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\S4method{csDensity}{CuffFeatureSet}(object, logMode=TRUE, pseudocount=1.0, labels, features=FALSE, ...)
 
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\S4method{csDensity}{CuffData}(object, logMode=TRUE, pseudocount=0, labels, features=FALSE, replicates=FALSE,...)
 
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\S4method{csDensity}{CuffFeatureSet}(object, logMode=TRUE, pseudocount=0, labels, features=FALSE, replicates=FALSE,...)
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}
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%- maybe also 'usage' for other objects documented here.
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\arguments{
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Will include all fields from 'features' slot in returned ggplot object.
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Useful for further manipulations of plot object using feature-level attributes (e.g. gene_type, class_code, etc)
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}
 
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  \item{replicates}{
 
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A logical value whether or not to plot individual replicates or aggregate condition values.
 
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}
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  \item{\dots}{
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Additional arguments
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}