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05/13: gnu: r-scran: Move to (gnu packages bioconductor).
From: |
guix-commits |
Subject: |
05/13: gnu: r-scran: Move to (gnu packages bioconductor). |
Date: |
Mon, 14 Sep 2020 15:39:50 -0400 (EDT) |
rekado pushed a commit to branch master
in repository guix.
commit 1193b77e60a20c2b2751b2abb500d36ab505080e
Author: zimoun <zimon.toutoune@gmail.com>
AuthorDate: Mon Sep 14 18:07:40 2020 +0200
gnu: r-scran: Move to (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-scran): Move from here...
* gnu/packages/bioconductor.scm (r-scran): ...to here.
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
---
gnu/packages/bioconductor.scm | 43 +++++++++++++++++++++++++++++++++++++++++
gnu/packages/bioinformatics.scm | 43 -----------------------------------------
2 files changed, 43 insertions(+), 43 deletions(-)
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 8d7daae..56ceed3 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -8347,6 +8347,49 @@ routines.")
objects from the @code{graph} package.")
(license license:epl1.0)))
+(define-public r-scran
+ (package
+ (name "r-scran")
+ (version "1.16.0")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "scran" version))
+ (sha256
+ (base32
+ "1gm4ys4aq8h1pn45k1rxk384wjyf55izivw8kgxbrflj6j4xvvsv"))))
+ (build-system r-build-system)
+ (propagated-inputs
+ `(("r-beachmat" ,r-beachmat)
+ ("r-bh" ,r-bh)
+ ("r-biocgenerics" ,r-biocgenerics)
+ ("r-biocneighbors" ,r-biocneighbors)
+ ("r-biocparallel" ,r-biocparallel)
+ ("r-biocsingular" ,r-biocsingular)
+ ("r-delayedarray" ,r-delayedarray)
+ ("r-delayedmatrixstats" ,r-delayedmatrixstats)
+ ("r-dqrng" ,r-dqrng)
+ ("r-edger" ,r-edger)
+ ("r-igraph" ,r-igraph)
+ ("r-iranges" ,r-iranges)
+ ("r-limma" ,r-limma)
+ ("r-matrix" ,r-matrix)
+ ("r-rcpp" ,r-rcpp)
+ ("r-s4vectors" ,r-s4vectors)
+ ("r-scater" ,r-scater)
+ ("r-singlecellexperiment" ,r-singlecellexperiment)
+ ("r-statmod" ,r-statmod)
+ ("r-summarizedexperiment" ,r-summarizedexperiment)))
+ (native-inputs
+ `(("r-knitr" ,r-knitr)))
+ (home-page "https://bioconductor.org/packages/scran")
+ (synopsis "Methods for single-cell RNA-Seq data analysis")
+ (description "This package implements a variety of low-level analyses of
+single-cell RNA-seq data. Methods are provided for normalization of
+cell-specific biases, assignment of cell cycle phase, and detection of highly
+variable and significantly correlated genes.")
+ (license license:gpl3)))
+
(define-public r-delayedmatrixstats
(package
(name "r-delayedmatrixstats")
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index ccdc693..dcafbb2 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -10857,49 +10857,6 @@ various analyses of single-cell RNA-seq gene
expression data, with a focus on
quality control.")
(license license:gpl2+)))
-(define-public r-scran
- (package
- (name "r-scran")
- (version "1.16.0")
- (source
- (origin
- (method url-fetch)
- (uri (bioconductor-uri "scran" version))
- (sha256
- (base32
- "1gm4ys4aq8h1pn45k1rxk384wjyf55izivw8kgxbrflj6j4xvvsv"))))
- (build-system r-build-system)
- (propagated-inputs
- `(("r-beachmat" ,r-beachmat)
- ("r-bh" ,r-bh)
- ("r-biocgenerics" ,r-biocgenerics)
- ("r-biocneighbors" ,r-biocneighbors)
- ("r-biocparallel" ,r-biocparallel)
- ("r-biocsingular" ,r-biocsingular)
- ("r-delayedarray" ,r-delayedarray)
- ("r-delayedmatrixstats" ,r-delayedmatrixstats)
- ("r-dqrng" ,r-dqrng)
- ("r-edger" ,r-edger)
- ("r-igraph" ,r-igraph)
- ("r-iranges" ,r-iranges)
- ("r-limma" ,r-limma)
- ("r-matrix" ,r-matrix)
- ("r-rcpp" ,r-rcpp)
- ("r-s4vectors" ,r-s4vectors)
- ("r-scater" ,r-scater)
- ("r-singlecellexperiment" ,r-singlecellexperiment)
- ("r-statmod" ,r-statmod)
- ("r-summarizedexperiment" ,r-summarizedexperiment)))
- (native-inputs
- `(("r-knitr" ,r-knitr)))
- (home-page "https://bioconductor.org/packages/scran")
- (synopsis "Methods for single-cell RNA-Seq data analysis")
- (description "This package implements a variety of low-level analyses of
-single-cell RNA-seq data. Methods are provided for normalization of
-cell-specific biases, assignment of cell cycle phase, and detection of highly
-variable and significantly correlated genes.")
- (license license:gpl3)))
-
(define-public r-dropbead
(let ((commit "d746c6f3b32110428ea56d6a0001ce52a251c247")
(revision "2"))
- branch master updated (62881be -> 3159fcf), guix-commits, 2020/09/14
- 01/13: gnu: r-fourcseq: Move to (gnu packages bioconductor)., guix-commits, 2020/09/14
- 02/13: gnu: r-preprocesscore: Move to (gnu packages bioconductor)., guix-commits, 2020/09/14
- 03/13: gnu: r-rgraphviz: Move to (gnu packages bioconductor)., guix-commits, 2020/09/14
- 04/13: gnu: r-delayedmatrixstats: Move to (gnu packages bioconductor)., guix-commits, 2020/09/14
- 05/13: gnu: r-scran: Move to (gnu packages bioconductor).,
guix-commits <=
- 06/13: gnu: r-scater: Move to (gnu packages bioconductor)., guix-commits, 2020/09/14
- 09/13: gnu: r-rhdf5lib: Move to (gnu packages bioconductor)., guix-commits, 2020/09/14
- 07/13: gnu: r-singlecellexperiment: Move to (gnu packages bioconductor)., guix-commits, 2020/09/14
- 08/13: gnu: r-beachmat: Move to (gnu packages bioconductor)., guix-commits, 2020/09/14
- 11/13: gnu: r-hitc: Move to (gnu packages bioconductor)., guix-commits, 2020/09/14
- 12/13: gnu: r-fithic: Move to (gnu packages bioconductor)., guix-commits, 2020/09/14
- 10/13: gnu: r-hdf5array: Move to (gnu packages bioconductor)., guix-commits, 2020/09/14
- 13/13: gnu: r-wgcna: Move to (gnu packages bioconductor)., guix-commits, 2020/09/14