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04/10: gnu: Add r-derfinder.
From: |
guix-commits |
Subject: |
04/10: gnu: Add r-derfinder. |
Date: |
Mon, 28 Aug 2023 13:10:44 -0400 (EDT) |
rekado pushed a commit to branch master
in repository guix.
commit 67f43837692e9522fb772aa2ee0106fd2d1fcbff
Author: Ricardo Wurmus <rekado@elephly.net>
AuthorDate: Mon Aug 28 17:27:46 2023 +0200
gnu: Add r-derfinder.
* gnu/packages/bioconductor.scm (r-derfinder): New variable.
---
gnu/packages/bioconductor.scm | 46 +++++++++++++++++++++++++++++++++++++++++++
1 file changed, 46 insertions(+)
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index a7f4c464b0..b4730b0168 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -4960,6 +4960,52 @@ space. This can help to create visualisations that are
more representative of
heterogeneity in the original high-dimensional space.")
(license license:expat)))
+(define-public r-derfinder
+ (package
+ (name "r-derfinder")
+ (version "1.34.0")
+ (source (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "derfinder" version))
+ (sha256
+ (base32
+ "1gb65hk26ffn0njsgwgk43z9i9bcvx89pz5m9x951c2a07c1xrcw"))))
+ (properties `((upstream-name . "derfinder")))
+ (build-system r-build-system)
+ (propagated-inputs (list r-annotationdbi
+ r-biocgenerics
+ r-biocparallel
+ r-bumphunter
+ r-derfinderhelper
+ r-genomeinfodb
+ r-genomicalignments
+ r-genomicfeatures
+ r-genomicfiles
+ r-genomicranges
+ r-hmisc
+ r-iranges
+ r-qvalue
+ r-rsamtools
+ r-rtracklayer
+ r-s4vectors))
+ (native-inputs (list r-knitr))
+ (home-page "https://github.com/lcolladotor/derfinder")
+ (synopsis
+ "Annotation-agnostic differential expression analysis of RNA-seq data")
+ (description
+ "This package provides functions for annotation-agnostic differential
+expression analysis of RNA-seq data. Two implementations of the DER Finder
+approach are included in this package:
+
+@enumerate
+@item single base-level F-statistics and
+@item DER identification at the expressed regions-level.
+@end enumerate
+
+The DER Finder approach can also be used to identify differentially bounded
+@code{ChIP-seq} peaks.")
+ (license license:artistic2.0)))
+
(define-public r-derfinderhelper
(package
(name "r-derfinderhelper")
- branch master updated (3350e871a8 -> c8a642de9a), guix-commits, 2023/08/28
- 04/10: gnu: Add r-derfinder.,
guix-commits <=
- 03/10: gnu: Add r-sangerseqr., guix-commits, 2023/08/28
- 02/10: gnu: Add r-rtcga., guix-commits, 2023/08/28
- 08/10: gnu: Add r-sesame., guix-commits, 2023/08/28
- 09/10: gnu: Add r-lea., guix-commits, 2023/08/28
- 05/10: gnu: Add r-rdisop., guix-commits, 2023/08/28
- 07/10: gnu: Add r-sesamedata., guix-commits, 2023/08/28
- 01/10: gnu: Add r-arrayqualitymetrics., guix-commits, 2023/08/28
- 06/10: gnu: Add r-enrichedheatmap., guix-commits, 2023/08/28
- 10/10: import-utils: Do not include punctuation when wrapping in @code{}., guix-commits, 2023/08/28