Browse Source

gnu: Add r-vsn.

* gnu/packages/bioinformatics.scm (r-vsn): New variable.
wip-git-https
Ricardo Wurmus 5 years ago
parent
commit
7c08afaf7b
No known key found for this signature in database GPG Key ID: 197A5888235FACAC
  1. 33
      gnu/packages/bioinformatics.scm

33
gnu/packages/bioinformatics.scm

@ -8330,3 +8330,36 @@ CDF file formats.")
"This package contains functions for exploratory oligonucleotide array
analysis.")
(license license:lgpl2.0+)))
(define-public r-vsn
(package
(name "r-vsn")
(version "3.42.3")
(source
(origin
(method url-fetch)
(uri (bioconductor-uri "vsn" version))
(sha256
(base32
"0mgl0azys2g90simf8wx6jdwd7gyg3m4pf12n6w6507jixm2cg97"))))
(build-system r-build-system)
(propagated-inputs
`(("r-affy" ,r-affy)
("r-biobase" ,r-biobase)
("r-ggplot2" ,r-ggplot2)
("r-limma" ,r-limma)))
(home-page "http://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)))
Loading…
Cancel
Save