gnu: Add r-vsn.
* gnu/packages/bioinformatics.scm (r-vsn): New variable.
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@ -8330,3 +8330,36 @@ CDF file formats.")
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"This package contains functions for exploratory oligonucleotide array
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"This package contains functions for exploratory oligonucleotide array
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analysis.")
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analysis.")
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(license license:lgpl2.0+)))
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(license license:lgpl2.0+)))
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(define-public r-vsn
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(package
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(name "r-vsn")
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(version "3.42.3")
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(source
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(origin
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(method url-fetch)
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(uri (bioconductor-uri "vsn" version))
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(sha256
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(base32
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"0mgl0azys2g90simf8wx6jdwd7gyg3m4pf12n6w6507jixm2cg97"))))
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(build-system r-build-system)
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(propagated-inputs
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`(("r-affy" ,r-affy)
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("r-biobase" ,r-biobase)
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("r-ggplot2" ,r-ggplot2)
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("r-limma" ,r-limma)))
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(home-page "http://bioconductor.org/packages/release/bioc/html/vsn.html")
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(synopsis "Variance stabilization and calibration for microarray data")
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(description
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"The package implements a method for normalising microarray intensities,
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and works for single- and multiple-color arrays. It can also be used for data
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from other technologies, as long as they have similar format. The method uses
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a robust variant of the maximum-likelihood estimator for an
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additive-multiplicative error model and affine calibration. The model
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incorporates data calibration step (a.k.a. normalization), a model for the
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dependence of the variance on the mean intensity and a variance stabilizing
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data transformation. Differences between transformed intensities are
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analogous to \"normalized log-ratios\". However, in contrast to the latter,
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their variance is independent of the mean, and they are usually more sensitive
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and specific in detecting differential transcription.")
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(license license:artistic2.0)))
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