@@ -3480,6 +3480,42 @@ 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")
@@ -8934,42 +8934,6 @@ 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")