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branch master updated: gnu: Add r-methylaid.
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guix-commits |
Subject: |
branch master updated: gnu: Add r-methylaid. |
Date: |
Sat, 04 Nov 2023 06:39:26 -0400 |
This is an automated email from the git hooks/post-receive script.
rekado pushed a commit to branch master
in repository guix.
The following commit(s) were added to refs/heads/master by this push:
new 7eeab6417f gnu: Add r-methylaid.
7eeab6417f is described below
commit 7eeab6417f50b35305ec588b9d8e77adaf24f102
Author: Mădălin Ionel Patrașcu <madalinionel.patrascu@mdc-berlin.de>
AuthorDate: Fri Nov 3 14:51:17 2023 +0100
gnu: Add r-methylaid.
* gnu/packages/bioconductor.scm (r-methylaid): New variable.
Change-Id: I7839035e5316bdbe5f1386b7b41ed2fc440fb432
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
---
gnu/packages/bioconductor.scm | 38 ++++++++++++++++++++++++++++++++++++++
1 file changed, 38 insertions(+)
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index b15a856fb9..8ccc5f49b2 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -8637,6 +8637,44 @@ on the basis that cells of the same type should have
more similar gene expressio
profiles than cells of different types.")
(license license:expat)))
+(define-public r-methylaid
+ (package
+ (name "r-methylaid")
+ (version "1.36.0")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "MethylAid" version))
+ (sha256
+ (base32 "0mzml9j6f7yycf9747ikkpfvxnwji07h8jhwa9a54ix2d0wyxk3d"))))
+ (properties `((upstream-name . "MethylAid")))
+ (build-system r-build-system)
+ (propagated-inputs
+ (list r-biobase
+ r-biocgenerics
+ r-biocparallel
+ r-ggplot2
+ r-gridbase
+ r-hexbin
+ r-matrixstats
+ r-minfi
+ r-rcolorbrewer
+ r-shiny
+ r-summarizedexperiment))
+ (native-inputs (list r-knitr))
+ (home-page "https://git.bioconductor.org/packages/MethylAid")
+ (synopsis
+ "Quality control of large Illumina DNA Methylation array data sets")
+ (description
+ "This package provides a visual and interactive web application using
+RStudio's shiny package. Bad quality samples are detected using
sample-dependent
+and sample-independent controls present on the array and user adjustable
+thresholds. In depth exploration of bad quality samples can be performed using
+several interactive diagnostic plots of the quality control probes present on
+the array. Furthermore, the impact of any batch effect provided by the user
can
+be explored.")
+ (license license:gpl2+)))
+
(define-public r-methylkit
(package
(name "r-methylkit")
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