diff options
| author | Ricardo Wurmus <rekado@elephly.net> | 2019-03-13 13:35:33 +0100 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2019-03-13 13:35:33 +0100 |
| commit | 5ec5ba027208f0028009a5e0b9b1dcb97ffe520e (patch) | |
| tree | 2e9a6618b0cdfb513b693e3bbc67d62cbfd32f49 | |
| parent | 0f5c9cec502e0b4c8b4a8aa5b9c42474920c3e03 (diff) | |
gnu: Add r-methylumi.
* gnu/packages/bioconductor.scm (r-methylumi): New variable.
| -rw-r--r-- | gnu/packages/bioconductor.scm | 44 |
1 files changed, 44 insertions, 0 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 39eb705a02..c0dbbebea6 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -2315,3 +2315,47 @@ studies.") "This package provides tools to analyze and visualize Illumina Infinium methylation arrays.") (license license:artistic2.0))) + +(define-public r-methylumi + (package + (name "r-methylumi") + (version "2.28.0") + (source + (origin + (method url-fetch) + (uri (bioconductor-uri "methylumi" version)) + (sha256 + (base32 + "14p2qi18cprfvb2gxng1vm48c7zwh23h88q9qjgipj9xl5axsgw2")))) + (build-system r-build-system) + (propagated-inputs + `(("r-annotate" ,r-annotate) + ("r-annotationdbi" ,r-annotationdbi) + ("r-biobase" ,r-biobase) + ("r-biocgenerics" ,r-biocgenerics) + ("r-fdb-infiniummethylation-hg19" ,r-fdb-infiniummethylation-hg19) + ("r-genefilter" ,r-genefilter) + ("r-genomeinfodb" ,r-genomeinfodb) + ("r-genomicranges" ,r-genomicranges) + ("r-ggplot2" ,r-ggplot2) + ("r-illuminaio" ,r-illuminaio) + ("r-iranges" ,r-iranges) + ("r-lattice" ,r-lattice) + ("r-matrixstats" ,r-matrixstats) + ("r-minfi" ,r-minfi) + ("r-reshape2" ,r-reshape2) + ("r-s4vectors" ,r-s4vectors) + ("r-scales" ,r-scales) + ("r-summarizedexperiment" ,r-summarizedexperiment))) + (home-page "https://bioconductor.org/packages/methylumi") + (synopsis "Handle Illumina methylation data") + (description + "This package provides classes for holding and manipulating Illumina +methylation data. Based on eSet, it can contain MIAME information, sample +information, feature information, and multiple matrices of data. An +\"intelligent\" import function, methylumiR can read the Illumina text files +and create a MethyLumiSet. methylumIDAT can directly read raw IDAT files from +HumanMethylation27 and HumanMethylation450 microarrays. Normalization, +background correction, and quality control features for GoldenGate, Infinium, +and Infinium HD arrays are also included.") + (license license:gpl2))) |