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14/16: gnu: Add r-dmrcate.
From: |
guix-commits |
Subject: |
14/16: gnu: Add r-dmrcate. |
Date: |
Thu, 30 Mar 2023 08:28:06 -0400 (EDT) |
rekado pushed a commit to branch master
in repository guix.
commit bd350536774b5285b74b3f80c9fb347883b5241a
Author: Ricardo Wurmus <rekado@elephly.net>
AuthorDate: Thu Mar 30 14:22:27 2023 +0200
gnu: Add r-dmrcate.
* gnu/packages/bioconductor.scm (r-dmrcate): New variable.
---
gnu/packages/bioconductor.scm | 40 ++++++++++++++++++++++++++++++++++++++++
1 file changed, 40 insertions(+)
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 46a93f88af..b61fcaa051 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -4692,6 +4692,46 @@ spent loading the full derfinder package when running
the F-statistics
calculation in parallel.")
(license license:artistic2.0)))
+(define-public r-dmrcate
+ (package
+ (name "r-dmrcate")
+ (version "2.12.0")
+ (source (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "DMRcate" version))
+ (sha256
+ (base32
+ "0iphlsbam5fcxbj5j0cmqk3wz5ykwz0mvk3qbrhzxbpf2h4w2qib"))))
+ (properties `((upstream-name . "DMRcate")))
+ (build-system r-build-system)
+ (propagated-inputs
+ (list r-bsseq
+ r-dss
+ r-edger
+ r-experimenthub
+ r-genomeinfodb
+ r-genomicranges
+ r-gviz
+ r-iranges
+ r-limma
+ r-minfi
+ r-missmethyl
+ r-plyr
+ r-s4vectors
+ r-summarizedexperiment))
+ (native-inputs (list r-knitr))
+ (home-page "https://bioconductor.org/packages/DMRcate")
+ (synopsis "Methylation array and sequencing spatial analysis methods")
+ (description
+ "This is a package for de novo identification and extraction of
+@dfn{differentially methylated regions} (DMRs) from the human genome using
+@dfn{Whole Genome Bisulfite Sequencing} (WGBS) and Illumina Infinium
+Array (450K and EPIC) data. It provides functionality for filtering probes
+possibly confounded by SNPs and cross-hybridisation. It includes
+@code{GRanges} generation and plotting functions.")
+ ;; GPLv3 with additional liability disclaimer.
+ (license license:gpl3)))
+
(define-public r-drimseq
(package
(name "r-drimseq")
- 15/16: gnu: Add r-rpmm., (continued)
- 15/16: gnu: Add r-rpmm., guix-commits, 2023/03/30
- 02/16: gnu: Add r-minfidata., guix-commits, 2023/03/30
- 03/16: gnu: Add r-jade., guix-commits, 2023/03/30
- 04/16: gnu: Add r-isva., guix-commits, 2023/03/30
- 06/16: gnu: Add r-globaltest., guix-commits, 2023/03/30
- 08/16: gnu: Add r-champdata., guix-commits, 2023/03/30
- 09/16: gnu: Add r-ruv., guix-commits, 2023/03/30
- 10/16: gnu: Add r-illumina450probevariants-db., guix-commits, 2023/03/30
- 01/16: gnu: Add r-illuminahumanmethylation450kmanifest., guix-commits, 2023/03/30
- 13/16: gnu: Add r-dss., guix-commits, 2023/03/30
- 14/16: gnu: Add r-dmrcate.,
guix-commits <=
- 16/16: gnu: Add r-champ., guix-commits, 2023/03/30
- 12/16: gnu: Add r-missmethyl., guix-commits, 2023/03/30
- 11/16: gnu: Add r-illuminahumanmethylationepicanno-ilm10b4-hg19., guix-commits, 2023/03/30