From: "Mădălin Ionel Patrașcu" <madalinionel.patrascu@mdc-berlin.de>
To: 54850@debbugs.gnu.org
Subject: [bug#54850] [PATCH] gnu: Add r-tricycle.
Date: Mon, 11 Apr 2022 13:27:27 +0200 [thread overview]
Message-ID: <20220411112727.15262-1-madalinionel.patrascu@mdc-berlin.de> (raw)
* gnu/packages/bioconductor.scm (r-tricycle): New variable.
---
gnu/packages/bioconductor.scm | 37 +++++++++++++++++++++++++++++++++++
1 file changed, 37 insertions(+)
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index ce1e23f0bf..e6555c93df 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -775,6 +775,43 @@ (define-public r-ensdb-mmusculus-v79
Ensembl.")
(license license:artistic2.0)))
+(define-public r-tricycle
+ (package
+ (name "r-tricycle")
+ (version "1.2.1")
+ (source (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "tricycle" version))
+ (sha256
+ (base32
+ "19yh7yif8630j845m9rddva2z0xy4jcw9j4hvyr076jqbyxz998r"))))
+ (properties `((upstream-name . "tricycle")))
+ (build-system r-build-system)
+ (propagated-inputs (list r-annotationdbi
+ r-circular
+ r-dplyr
+ r-genomicranges
+ r-ggplot2
+ r-iranges
+ r-rcolorbrewer
+ r-s4vectors
+ r-scater
+ r-scattermore
+ r-singlecellexperiment
+ r-summarizedexperiment))
+ (native-inputs (list r-knitr))
+ (home-page "https://github.com/hansenlab/tricycle")
+ (synopsis "Transferable representation and inference of cell cycle")
+ (description
+ "The package contains functions to infer and visualize cell cycle process
+using Single-cell RNA-Seq data. It exploits the idea of transfer learning,
+projecting new data to the previous learned biologically interpretable space.
+The @code{tricycle} provides a pre-learned cell cycle space, which could be
+used to infer cell cycle time of human and mouse single cell samples. In
+addition, it also offer functions to visualize cell cycle time on different
+embeddings and functions to build new reference.")
+ (license license:gpl3)))
+
(define-public r-txdb-dmelanogaster-ucsc-dm6-ensgene
(package
(name "r-txdb-dmelanogaster-ucsc-dm6-ensgene")
--
2.34.0
next reply other threads:[~2022-04-11 11:28 UTC|newest]
Thread overview: 2+ messages / expand[flat|nested] mbox.gz Atom feed top
2022-04-11 11:27 Mădălin Ionel Patrașcu [this message]
2022-04-14 4:59 ` bug#54850: [PATCH] gnu: Add r-tricycle Ricardo Wurmus
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