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gnu: r-vsn: Move to (gnu packages bioconductor).

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* gnu/packages/bioinformatics.scm (r-vsn): Move from here...
* gnu/packages/bioconductor.scm (r-vsn): ...to here.
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zimoun 2021-05-21 22:26:02 +02:00 committed by Ricardo Wurmus
parent 96ae9822c4
commit 8d4311bb8e
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2 changed files with 36 additions and 36 deletions
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36
gnu/packages/bioconductor.scm
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@ -3746,6 +3746,42 @@ dependencies between GO terms can be implemented and applied.")
coding changes and predict coding outcomes.")
(license license:artistic2.0)))
(define-public r-vsn
(package
(name "r-vsn")
(version "3.58.0")
(source
(origin
(method url-fetch)
(uri (bioconductor-uri "vsn" version))
(sha256
(base32
"0dfrfflidpnphwyqzmmfiz9blfqv6qa09xlwgfabhpfsf3ml2rlb"))))
(build-system r-build-system)
(propagated-inputs
`(("r-affy" ,r-affy)
("r-biobase" ,r-biobase)
("r-ggplot2" ,r-ggplot2)
("r-lattice" ,r-lattice)
("r-limma" ,r-limma)))
(native-inputs
`(("r-knitr" ,r-knitr))) ; for vignettes
(home-page "https://bioconductor.org/packages/release/bioc/html/vsn.html")
(synopsis "Variance stabilization and calibration for microarray data")
(description
"The package implements a method for normalising microarray intensities,
and works for single- and multiple-color arrays. It can also be used for data
from other technologies, as long as they have similar format. The method uses
a robust variant of the maximum-likelihood estimator for an
additive-multiplicative error model and affine calibration. The model
incorporates data calibration step (a.k.a. normalization), a model for the
dependence of the variance on the mean intensity and a variance stabilizing
data transformation. Differences between transformed intensities are
analogous to \"normalized log-ratios\". However, in contrast to the latter,
their variance is independent of the mean, and they are usually more sensitive
and specific in detecting differential transcription.")
(license license:artistic2.0)))
(define-public r-xvector
(package
(name "r-xvector")

36
gnu/packages/bioinformatics.scm
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@ -9108,42 +9108,6 @@ proteowizard library for mzML and mzIdentML. The netCDF reading code has
previously been used in XCMS.")
(license license:artistic2.0)))
(define-public r-vsn
(package
(name "r-vsn")
(version "3.58.0")
(source
(origin
(method url-fetch)
(uri (bioconductor-uri "vsn" version))
(sha256
(base32
"0dfrfflidpnphwyqzmmfiz9blfqv6qa09xlwgfabhpfsf3ml2rlb"))))
(build-system r-build-system)
(propagated-inputs
`(("r-affy" ,r-affy)
("r-biobase" ,r-biobase)
("r-ggplot2" ,r-ggplot2)
("r-lattice" ,r-lattice)
("r-limma" ,r-limma)))
(native-inputs
`(("r-knitr" ,r-knitr))) ; for vignettes
(home-page "https://bioconductor.org/packages/release/bioc/html/vsn.html")
(synopsis "Variance stabilization and calibration for microarray data")
(description
"The package implements a method for normalising microarray intensities,
and works for single- and multiple-color arrays. It can also be used for data
from other technologies, as long as they have similar format. The method uses
a robust variant of the maximum-likelihood estimator for an
additive-multiplicative error model and affine calibration. The model
incorporates data calibration step (a.k.a. normalization), a model for the
dependence of the variance on the mean intensity and a variance stabilizing
data transformation. Differences between transformed intensities are
analogous to \"normalized log-ratios\". However, in contrast to the latter,
their variance is independent of the mean, and they are usually more sensitive
and specific in detecting differential transcription.")
(license license:artistic2.0)))
(define-public r-ensembldb
(package
(name "r-ensembldb")