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| author | Ricardo Wurmus <rekado@elephly.net> | 2019-03-13 13:35:40 +0100 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2019-03-13 13:35:40 +0100 |
| commit | 09605cb2d16623649064fcd7b26dc7d7e0ae5f88 (patch) | |
| tree | 44dc445946564d269d9d7c9ff1f11979d50c9713 | |
| parent | 5ec5ba027208f0028009a5e0b9b1dcb97ffe520e (diff) | |
gnu: Add r-lumi.
* gnu/packages/bioconductor.scm (r-lumi): New variable.
| -rw-r--r-- | gnu/packages/bioconductor.scm | 39 |
1 files changed, 39 insertions, 0 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index c0dbbebea6..f2572b45c2 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -2359,3 +2359,42 @@ HumanMethylation27 and HumanMethylation450 microarrays. Normalization, background correction, and quality control features for GoldenGate, Infinium, and Infinium HD arrays are also included.") (license license:gpl2))) + +(define-public r-lumi + (package + (name "r-lumi") + (version "2.34.0") + (source + (origin + (method url-fetch) + (uri (bioconductor-uri "lumi" version)) + (sha256 + (base32 + "1fpmjpgcy5n0hx9whn9m3jhjmciqq0l59nvy5addbq0a4wnjhx8q")))) + (build-system r-build-system) + (propagated-inputs + `(("r-affy" ,r-affy) + ("r-annotate" ,r-annotate) + ("r-annotationdbi" ,r-annotationdbi) + ("r-biobase" ,r-biobase) + ("r-dbi" ,r-dbi) + ("r-genomicfeatures" ,r-genomicfeatures) + ("r-genomicranges" ,r-genomicranges) + ("r-kernsmooth" ,r-kernsmooth) + ("r-lattice" ,r-lattice) + ("r-mass" ,r-mass) + ("r-methylumi" ,r-methylumi) + ("r-mgcv" ,r-mgcv) + ("r-nleqslv" ,r-nleqslv) + ("r-preprocesscore" ,r-preprocesscore) + ("r-rsqlite" ,r-rsqlite))) + (home-page "https://bioconductor.org/packages/lumi") + (synopsis "BeadArray-specific methods for Illumina methylation and expression microarrays") + (description + "The lumi package provides an integrated solution for the Illumina +microarray data analysis. It includes functions of Illumina +BeadStudio (GenomeStudio) data input, quality control, BeadArray-specific +variance stabilization, normalization and gene annotation at the probe level. +It also includes the functions of processing Illumina methylation microarrays, +especially Illumina Infinium methylation microarrays.") + (license license:lgpl2.0+))) |