From: "Mădălin Ionel Patrașcu" <madalinionel.patrascu@mdc-berlin.de>
To: <55124@debbugs.gnu.org>
Cc: rekado@elephly.net
Subject: [bug#55124] [PATCH 1/2] gnu: Add r-saver.
Date: Tue, 26 Apr 2022 13:36:22 +0200 [thread overview]
Message-ID: <20220426113623.15268-1-madalinionel.patrascu@mdc-berlin.de> (raw)
In-Reply-To: <7d2f41e893ea40a98618c962d4f02ca5@mdc-berlin.de>
* gnu/packages/cran.scm (r-saver): New variable.
---
gnu/packages/cran.scm | 31 +++++++++++++++++++++++++++++++
1 file changed, 31 insertions(+)
diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index 21cfca3102..ab93a94158 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -2333,6 +2333,37 @@ (define-public r-sass
language, which is stable, powerful, and CSS compatible.")
(license license:expat)))
+(define-public r-saver
+ (package
+ (name "r-saver")
+ (version "1.1.2")
+ (source (origin
+ (method url-fetch)
+ (uri (cran-uri "SAVER" version))
+ (sha256
+ (base32
+ "1s1kw8idkaj7j90fw4qn9k0wd4vz0sblsk06ry6lm4afcar0p158"))))
+ (properties `((upstream-name . "SAVER")))
+ (build-system r-build-system)
+ (propagated-inputs (list r-doparallel r-foreach r-glmnet r-iterators
+ r-matrix))
+ (native-inputs (list r-knitr))
+ (home-page "https://github.com/mohuangx/SAVER")
+ (synopsis
+ "Recovery of the gene expression profile in noisy and sparse scRNA-seq data")
+ (description
+ "This package is an implementation of a regularized regression prediction
+and empirical Bayes method to recover the true gene expression profile in noisy
+and sparse single-cell RNA-seq data. In @dfn{single-cell RNA sequencing}
+(scRNA-seq) studies, only a small fraction of the transcripts present in each
+cell are sequenced. This leads to unreliable quantification of genes with low
+or moderate expression, which hinders downstream analysis. This package
+@dfn{single-cell analysis via expression recovery} (SAVER) implements an
+expression recovery method for unique molecule index (UMI)-based scRNA-seq data
+that borrows information across genes and cells to provide accurate expression
+estimates for all genes.")
+ (license license:gpl2)))
+
;; This package includes minified JavaScript files. When upgrading please
;; check that there are no new minified JavaScript files.
(define-public r-bslib
base-commit: 30ff557bd7255dddec16f4a032e58f5a88d5e448
--
2.34.0
next prev parent reply other threads:[~2022-04-26 11:37 UTC|newest]
Thread overview: 4+ messages / expand[flat|nested] mbox.gz Atom feed top
2022-04-26 11:33 [bug#55124] [PATCH] gnu: Add r-adimpute and r-saver MadalinIonel.Patrascu
2022-04-26 11:36 ` Mădălin Ionel Patrașcu [this message]
2022-04-26 11:36 ` [bug#55124] [PATCH 2/2] gnu: Add r-adimpute Mădălin Ionel Patrașcu
2022-04-27 13:51 ` bug#55124: [PATCH] gnu: Add r-adimpute and r-saver Ricardo Wurmus
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