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12/36: gnu: Add biomaRt.

From: Ricardo Wurmus
Subject: 12/36: gnu: Add biomaRt.
Date: Thu, 07 Jan 2016 16:19:07 +0000

rekado pushed a commit to branch master
in repository guix.

commit c465fa72ed004ebdb18ae67309da85826d426d67
Author: Ricardo Wurmus <address@hidden>
Date:   Fri Dec 18 14:06:52 2015 +0100

    gnu: Add biomaRt.
    * gnu/packages/bioinformatics.scm (r-biomart): New variable.
 gnu/packages/bioinformatics.scm |   30 ++++++++++++++++++++++++++++++
 1 files changed, 30 insertions(+), 0 deletions(-)

diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 9577f71..c8c74ff 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -3515,6 +3515,36 @@ on Bioconductor or which replace R functions.")
 annotation data packages using SQLite data storage.")
     (license license:artistic2.0)))
+(define-public r-biomart
+  (package
+    (name "r-biomart")
+    (version "2.26.1")
+    (source (origin
+              (method url-fetch)
+              (uri (bioconductor-uri "biomaRt" version))
+              (sha256
+               (base32
+                "1s709055abj2gd35g6nnk5d2ai5ii09iir270l2xika6pi62gj3f"))))
+    (properties
+     `((upstream-name . "biomaRt")))
+    (build-system r-build-system)
+    (propagated-inputs
+     `(("r-annotationdbi" ,r-annotationdbi)
+       ("r-rcurl" ,r-rcurl)
+       ("r-xml" ,r-xml)))
+    (home-page "";)
+    (synopsis "Interface to BioMart databases")
+    (description
+     "biomaRt provides an interface to a growing collection of databases
+implementing the @url{BioMart software suite,}.  The
+package enables retrieval of large amounts of data in a uniform way without
+the need to know the underlying database schemas or write complex SQL queries.
+Examples of BioMart databases are Ensembl, COSMIC, Uniprot, HGNC, Gramene,
+Wormbase and dbSNP mapped to Ensembl.  These major databases give biomaRt
+users direct access to a diverse set of data and enable a wide range of
+powerful online queries from gene annotation to database mining.")
+    (license license:artistic2.0)))
 (define-public r-qtl
   (name "r-qtl")

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