From: "Mădălin Ionel Patrașcu" <madalinionel.patrascu@mdc-berlin.de>
To: <45282@debbugs.gnu.org>
Cc: "Mădălin Ionel Patrașcu" <madalinionel.patrascu@mdc-berlin.de>
Subject: [bug#45282] [PATCH 2/2] gnu: Add r-pathview.
Date: Wed, 16 Dec 2020 23:15:33 +0100 [thread overview]
Message-ID: <20201216221533.3539-1-madalinionel.patrascu@mdc-berlin.de> (raw)
In-Reply-To: <955092cf-b234-26a5-88df-7e7d9911a729@mdc-berlin.de>
* gnu/packages/bioconductor.scm (r-pathview): New variable.
---
gnu/packages/bioconductor.scm | 34 ++++++++++++++++++++++++++++++++++
1 file changed, 34 insertions(+)
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 36274d0b39..b4a1af4306 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -9213,3 +9213,37 @@ on KEGG pathways and GO terms for major research species, including human,
mouse, rat and budding yeast. Mapping data between common gene IDs for budding
yeast are also included.")
(license license:gpl2+)))
+
+(define-public r-pathview
+ (package
+ (name "r-pathview")
+ (version "1.30.1")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "pathview" version))
+ (sha256
+ (base32 "11fisiksw1y64ii9q8p2znyp9w8mlqzgiaacmycw59rngkjlmbs4"))))
+ (properties `((upstream-name . "pathview")))
+ (build-system r-build-system)
+ (propagated-inputs
+ `(("r-annotationdbi" ,r-annotationdbi)
+ ("r-graph" ,r-graph)
+ ("r-kegggraph" ,r-kegggraph)
+ ("r-keggrest" ,r-keggrest)
+ ("r-org-hs-eg-db" ,r-org-hs-eg-db)
+ ("r-png" ,r-png)
+ ("r-rgraphviz" ,r-rgraphviz)
+ ("r-xml" ,r-xml)))
+ (home-page "https://pathview.uncc.edu/")
+ (synopsis "Tool set for pathway based data integration and visualization")
+ (description
+ "@code{r-pathview} is a tool set for pathway based data integration and
+visualization. It maps and renders a wide variety of biological data on
+relevant pathway graphs. All users need is to supply their data and specify
+the target pathway. This package automatically downloads the pathway graph
+data, parses the data file, maps user data to the pathway, and render pathway
+graph with the mapped data. In addition, @code{r-pathview} also seamlessly
+integrates with pathway and gene set (enrichment) analysis tools for
+large-scale and fully automated analysis.")
+ (license license:gpl3+)))
--
2.29.2
prev parent reply other threads:[~2020-12-16 22:18 UTC|newest]
Thread overview: 4+ messages / expand[flat|nested] mbox.gz Atom feed top
2020-12-16 22:02 [bug#45282] (no subject) Mădălin Ionel Patrașcu
2020-12-16 22:03 ` [bug#45282] [PATCH 1/2] gnu: Add r-kegggraph Mădălin Ionel Patrașcu
2020-12-17 11:32 ` bug#45282: " Ricardo Wurmus
2020-12-16 22:15 ` Mădălin Ionel Patrașcu [this message]
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