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09/10: gnu: r-edger: Move to (gnu packages bioconductor).
From: |
guix-commits |
Subject: |
09/10: gnu: r-edger: Move to (gnu packages bioconductor). |
Date: |
Mon, 15 Mar 2021 09:07:24 -0400 (EDT) |
rekado pushed a commit to branch master
in repository guix.
commit 082f3c54337aaba40b978dfa9963f8ed6f20123d
Author: zimoun <zimon.toutoune@gmail.com>
AuthorDate: Mon Mar 15 14:01:34 2021 +0100
gnu: r-edger: Move to (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-edger): Move from here...
* gnu/packages/bioconductor.scm (r-edger): ...to here.
---
gnu/packages/bioconductor.scm | 28 ++++++++++++++++++++++++++++
gnu/packages/bioinformatics.scm | 28 ----------------------------
2 files changed, 28 insertions(+), 28 deletions(-)
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index b4456d1..fb0127b 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -1684,6 +1684,34 @@ testing. The package also provides functions for the
visualization and
exploration of the results.")
(license license:gpl3+)))
+(define-public r-edger
+ (package
+ (name "r-edger")
+ (version "3.32.1")
+ (source (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "edgeR" version))
+ (sha256
+ (base32
+ "1gaic8qf6a6sy0bmydh1xzf52w0wnq31aanpvw3a30pfsi218bcp"))))
+ (properties `((upstream-name . "edgeR")))
+ (build-system r-build-system)
+ (propagated-inputs
+ `(("r-limma" ,r-limma)
+ ("r-locfit" ,r-locfit)
+ ("r-rcpp" ,r-rcpp)
+ ("r-statmod" ,r-statmod))) ;for estimateDisp
+ (home-page "http://bioinf.wehi.edu.au/edgeR")
+ (synopsis "EdgeR does empirical analysis of digital gene expression data")
+ (description "This package can do differential expression analysis of
+RNA-seq expression profiles with biological replication. It implements a range
+of statistical methodology based on the negative binomial distributions,
+including empirical Bayes estimation, exact tests, generalized linear models
+and quasi-likelihood tests. It be applied to differential signal analysis of
+other types of genomic data that produce counts, including ChIP-seq, SAGE and
+CAGE.")
+ (license license:gpl2+)))
+
(define-public r-genefilter
(package
(name "r-genefilter")
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index ff69960..dc0d7a2 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -7691,34 +7691,6 @@ including VCF header and contents in RDF and JSON.")
(home-page "https://github.com/vcflib/bio-vcf")
(license license:expat)))
-(define-public r-edger
- (package
- (name "r-edger")
- (version "3.32.1")
- (source (origin
- (method url-fetch)
- (uri (bioconductor-uri "edgeR" version))
- (sha256
- (base32
- "1gaic8qf6a6sy0bmydh1xzf52w0wnq31aanpvw3a30pfsi218bcp"))))
- (properties `((upstream-name . "edgeR")))
- (build-system r-build-system)
- (propagated-inputs
- `(("r-limma" ,r-limma)
- ("r-locfit" ,r-locfit)
- ("r-rcpp" ,r-rcpp)
- ("r-statmod" ,r-statmod))) ;for estimateDisp
- (home-page "http://bioinf.wehi.edu.au/edgeR")
- (synopsis "EdgeR does empirical analysis of digital gene expression data")
- (description "This package can do differential expression analysis of
-RNA-seq expression profiles with biological replication. It implements a range
-of statistical methodology based on the negative binomial distributions,
-including empirical Bayes estimation, exact tests, generalized linear models
-and quasi-likelihood tests. It be applied to differential signal analysis of
-other types of genomic data that produce counts, including ChIP-seq, SAGE and
-CAGE.")
- (license license:gpl2+)))
-
(define-public r-variantannotation
(package
(name "r-variantannotation")
- branch master updated (53dff6a -> bf612ea), guix-commits, 2021/03/15
- 01/10: gnu: r-biocviews: Move to (gnu packages bioconductor)., guix-commits, 2021/03/15
- 04/10: gnu: r-bioccheck: Move to (gnu packages bioconductor)., guix-commits, 2021/03/15
- 06/10: gnu: r-iranges: Move to (gnu packages bioconductor)., guix-commits, 2021/03/15
- 02/10: gnu: r-biocstyle: Move to (gnu packages bioconductor)., guix-commits, 2021/03/15
- 03/10: gnu: r-grohmm: Move to (gnu packages bioconductor)., guix-commits, 2021/03/15
- 05/10: gnu: r-s4vectors: Move to (gnu packages bioconductor)., guix-commits, 2021/03/15
- 09/10: gnu: r-edger: Move to (gnu packages bioconductor).,
guix-commits <=
- 07/10: gnu: r-genomeinfodbdata: Move to (gnu packages bioconductor)., guix-commits, 2021/03/15
- 08/10: gnu: r-genomeinfodb: Move to (gnu packages bioconductor)., guix-commits, 2021/03/15
- 10/10: gnu: r-variantannotation: Move to (gnu packages bioconductor)., guix-commits, 2021/03/15