gnu: r-vsn: Move to (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-vsn): Move from here... * gnu/packages/bioconductor.scm (r-vsn): ...to here.master
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@ -3746,6 +3746,42 @@ dependencies between GO terms can be implemented and applied.")
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coding changes and predict coding outcomes.")
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coding changes and predict coding outcomes.")
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(license license:artistic2.0)))
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(license license:artistic2.0)))
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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 "3.58.0")
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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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"0dfrfflidpnphwyqzmmfiz9blfqv6qa09xlwgfabhpfsf3ml2rlb"))))
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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-lattice" ,r-lattice)
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("r-limma" ,r-limma)))
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(native-inputs
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`(("r-knitr" ,r-knitr))) ; for vignettes
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(home-page "https://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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(define-public r-xvector
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(define-public r-xvector
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(package
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(package
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(name "r-xvector")
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(name "r-xvector")
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@ -9108,42 +9108,6 @@ proteowizard library for mzML and mzIdentML. The netCDF reading code has
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previously been used in XCMS.")
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previously been used in XCMS.")
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(license license:artistic2.0)))
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(license license:artistic2.0)))
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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 "3.58.0")
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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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"0dfrfflidpnphwyqzmmfiz9blfqv6qa09xlwgfabhpfsf3ml2rlb"))))
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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-lattice" ,r-lattice)
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("r-limma" ,r-limma)))
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(native-inputs
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`(("r-knitr" ,r-knitr))) ; for vignettes
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(home-page "https://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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(define-public r-ensembldb
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(define-public r-ensembldb
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(package
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(package
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(name "r-ensembldb")
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(name "r-ensembldb")
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