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branch master updated: gnu: Add r-scmap.
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guix-commits |
Subject: |
branch master updated: gnu: Add r-scmap. |
Date: |
Sat, 28 May 2022 18:45:37 -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 a5f4c03df1 gnu: Add r-scmap.
a5f4c03df1 is described below
commit a5f4c03df18f8f76d570b996399a4adf0fc297c6
Author: Mădălin Ionel Patrașcu <madalinionel.patrascu@mdc-berlin.de>
AuthorDate: Fri May 27 18:40:13 2022 +0200
gnu: Add r-scmap.
* gnu/packages/bioconductor.scm (r-scmap): New variable.
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
---
gnu/packages/bioconductor.scm | 42 ++++++++++++++++++++++++++++++++++++++++++
1 file changed, 42 insertions(+)
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 4baa80dcb1..1962117132 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -5049,6 +5049,48 @@ includes methods formerly found in the scran package,
and the new fast and
comprehensive scDblFinder method.")
(license license:gpl3)))
+(define-public r-scmap
+ (package
+ (name "r-scmap")
+ (version "1.18.0")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "scmap" version))
+ (sha256
+ (base32 "0pfwaa9pgml11b84rpf7afdkmg8kxb4srgpc56571vaz388xrv7l"))))
+ (properties `((upstream-name . "scmap")))
+ (build-system r-build-system)
+ (propagated-inputs
+ (list r-biobase
+ r-biocgenerics
+ r-dplyr
+ r-e1071
+ r-ggplot2
+ r-googlevis
+ r-matrixstats
+ r-proxy
+ r-randomforest
+ r-rcpp
+ r-rcpparmadillo
+ r-reshape2
+ r-s4vectors
+ r-singlecellexperiment
+ r-summarizedexperiment))
+ (native-inputs (list r-knitr))
+ (home-page "https://github.com/hemberg-lab/scmap")
+ (synopsis "Tool for unsupervised projection of single cell RNA-seq data")
+ (description
+ "@dfn{Single-cell RNA-seq} (scRNA-seq) is widely used to investigate the
+composition of complex tissues since the technology allows researchers to
+define cell-types using unsupervised clustering of the transcriptome.
+However, due to differences in experimental methods and computational
+analyses, it is often challenging to directly compare the cells identified in
+two different experiments. @code{scmap} is a method for projecting cells from
+a scRNA-seq experiment onto the cell-types or individual cells identified in a
+different experiment.")
+ (license license:gpl3)))
+
(define-public r-seqlogo
(package
(name "r-seqlogo")
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