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[bug#51513,2/3] gnu: Add r-stringdb.

Message ID 20211030155506.28269-2-madalinionel.patrascu@mdc-berlin.de
State Accepted
Headers show
Series [bug#51513,1/3] gnu: Add r-alluvial. | expand

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Commit Message

Mădălin Ionel Patrașcu Oct. 30, 2021, 3:55 p.m. UTC
* gnu/packages/bioconductor.scm (r-stringdb): New variable.
---
 gnu/packages/bioconductor.scm | 33 +++++++++++++++++++++++++++++++++
 1 file changed, 33 insertions(+)
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Patch

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")