From: "Mădălin Ionel Patrașcu" <madalinionel.patrascu@mdc-berlin.de>
To: <51513@debbugs.gnu.org>
Cc: rekado@elephly.net,
"Mădălin Ionel Patrașcu" <madalinionel.patrascu@mdc-berlin.de>
Subject: [bug#51513] [PATCH 2/3] gnu: Add r-stringdb.
Date: Sat, 30 Oct 2021 17:55:05 +0200 [thread overview]
Message-ID: <20211030155506.28269-2-madalinionel.patrascu@mdc-berlin.de> (raw)
In-Reply-To: <20211030155506.28269-1-madalinionel.patrascu@mdc-berlin.de>
* gnu/packages/bioconductor.scm (r-stringdb): New variable.
---
gnu/packages/bioconductor.scm | 33 +++++++++++++++++++++++++++++++++
1 file changed, 33 insertions(+)
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 90a0e1f288..f82427f831 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -4337,6 +4337,39 @@ (define-public r-slingshot
graph construction.")
(license license:artistic2.0)))
+(define-public r-stringdb
+ (package
+ (name "r-stringdb")
+ (version "2.6.0")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "STRINGdb" version))
+ (sha256
+ (base32 "1hvb73anhbf1g82nn5m11s783z6ihvlavf7p30w29qggxggnl6lm"))))
+ (properties `((upstream-name . "STRINGdb")))
+ (build-system r-build-system)
+ (propagated-inputs
+ `(("r-gplots" ,r-gplots)
+ ("r-hash" ,r-hash)
+ ("r-igraph" ,r-igraph)
+ ("r-plotrix" ,r-plotrix)
+ ("r-plyr" ,r-plyr)
+ ("r-png" ,r-png)
+ ("r-rcolorbrewer" ,r-rcolorbrewer)
+ ("r-rcurl" ,r-rcurl)
+ ("r-sqldf" ,r-sqldf)))
+ (home-page "https://git.bioconductor.org/packages/STRINGdb")
+ (synopsis "Searching tool for the retrieval of interacting proteins database")
+ (description
+ "The @code{STRINGdb} package provides a R interface to the STRING
+protein-protein interactions database. STRING (https://www.string-db.org) is a
+database of known and predicted protein-protein interactions. The interactions
+include direct (physical) and indirect (functional) associations. Each
+interaction is associated with a combined confidence score that integrates the
+various evidences.")
+ (license license:gpl2)))
+
(define-public r-structuralvariantannotation
(package
(name "r-structuralvariantannotation")
--
2.33.0
next prev parent reply other threads:[~2021-10-30 15:56 UTC|newest]
Thread overview: 5+ messages / expand[flat|nested] mbox.gz Atom feed top
2021-10-30 15:52 [bug#51513] Add r-xina and it's dependencies: r-stringdb and r-alluvial MadalinIonel.Patrascu
2021-10-30 15:55 ` [bug#51513] [PATCH 1/3] gnu: Add r-alluvial Mădălin Ionel Patrașcu
2021-10-30 15:55 ` Mădălin Ionel Patrașcu [this message]
2021-10-30 15:55 ` [bug#51513] [PATCH 3/3] gnu: Add r-xina Mădălin Ionel Patrașcu
2021-11-27 9:35 ` bug#51513: [PATCH 1/3] gnu: Add r-alluvial Ricardo Wurmus
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