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16/16: gnu: Add r-champ.
From: |
guix-commits |
Subject: |
16/16: gnu: Add r-champ. |
Date: |
Thu, 30 Mar 2023 08:28:06 -0400 (EDT) |
rekado pushed a commit to branch master
in repository guix.
commit 96e81b18b9dd6a7fdc2d178ee8d1542f8d55826f
Author: Ricardo Wurmus <rekado@elephly.net>
AuthorDate: Thu Mar 30 14:26:40 2023 +0200
gnu: Add r-champ.
* gnu/packages/bioconductor.scm (r-champ): New variable.
---
gnu/packages/bioconductor.scm | 62 +++++++++++++++++++++++++++++++++++++++++++
1 file changed, 62 insertions(+)
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index b61fcaa051..5a59ab86eb 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -5900,6 +5900,68 @@ genome data packages and support for efficient SNP
representation.")
analysis.")
(license license:artistic2.0)))
+(define-public r-champ
+ (package
+ (name "r-champ")
+ (version "2.28.0")
+ (source (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "ChAMP" version))
+ (sha256
+ (base32
+ "10ss0a3miqrx92vy1r1h5rv3mnjn4iyl32q86s0x59d3fvqp2cx1"))))
+ (properties `((upstream-name . "ChAMP")))
+ (build-system r-build-system)
+ (propagated-inputs
+ (list r-bumphunter
+ r-champdata
+ r-combinat
+ r-dendextend
+ r-dmrcate
+ r-dnacopy
+ r-doparallel
+ r-dt
+ r-genomicranges
+ r-ggplot2
+ r-globaltest
+ r-goseq
+ r-hmisc
+ r-illumina450probevariants-db
+ r-illuminahumanmethylation450kmanifest
+ r-illuminahumanmethylationepicanno-ilm10b4-hg19
+ r-illuminahumanmethylationepicmanifest
+ r-illuminaio
+ r-impute
+ r-isva
+ r-kpmt
+ r-limma
+ r-marray
+ r-matrixstats
+ r-minfi
+ r-missmethyl
+ r-plotly
+ r-plyr
+ r-preprocesscore
+ r-prettydoc
+ r-quadprog
+ r-qvalue
+ r-rcolorbrewer
+ r-rmarkdown
+ r-rpmm
+ r-shiny
+ r-shinythemes
+ r-sva
+ r-watermelon))
+ (native-inputs (list r-knitr))
+ (home-page "https://bioconductor.org/packages/ChAMP")
+ (synopsis
+ "Chip analysis methylation pipeline for Illumina HumanMethylation450 and
EPIC")
+ (description
+ "The package includes quality control metrics, a selection of
+normalization methods and novel methods to identify differentially methylated
+regions and to highlight copy number alterations.")
+ (license license:gpl3)))
+
(define-public r-chipseeker
(package
(name "r-chipseeker")
- 02/16: gnu: Add r-minfidata., (continued)
- 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, 2023/03/30
- 16/16: gnu: Add r-champ.,
guix-commits <=
- 12/16: gnu: Add r-missmethyl., guix-commits, 2023/03/30
- 11/16: gnu: Add r-illuminahumanmethylationepicanno-ilm10b4-hg19., guix-commits, 2023/03/30