01/01: gnu: Add r-txdb-hsapiens-ucsc-hg38-knowngene.

[guix-commits]

rekado pushed a commit to branch master
in repository guix.

commit 798b80cea2ebf4a2303cef94468803cd50a51f7d
Author: Ricardo Wurmus <address@hidden>
Date:   Wed Jun 12 16:22:30 2019 +0200

    gnu: Add r-txdb-hsapiens-ucsc-hg38-knowngene.
    
    * gnu/packages/bioconductor.scm (r-txdb-hsapiens-ucsc-hg38-knowngene): New 
variable.
---
 gnu/packages/bioconductor.scm | 29 +++++++++++++++++++++++++++++
 1 file changed, 29 insertions(+)

diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index c77e78a..e87907f 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -590,6 +590,35 @@ data.  It is derived from the UCSC hg19 genome and based 
on the \"knownGene\"
 track.  The database is exposed as a @code{TxDb} object.")
     (license license:artistic2.0)))
 
+(define-public r-txdb-hsapiens-ucsc-hg38-knowngene
+  (package
+    (name "r-txdb-hsapiens-ucsc-hg38-knowngene")
+    (version "3.4.6")
+    (source (origin
+              (method url-fetch)
+              ;; We cannot use bioconductor-uri here because this tarball is
+              ;; located under "data/annotation/" instead of "bioc/".
+              (uri (string-append "https://bioconductor.org/packages/";
+                                  "release/data/annotation/src/contrib"
+                                  "/TxDb.Hsapiens.UCSC.hg38.knownGene_"
+                                  version ".tar.gz"))
+              (sha256
+               (base32
+                "12j7rri9r129v9w1yiqadg952dx462dh092sxif3r5kk8l7bxkn9"))))
+    (properties
+     `((upstream-name . "TxDb.Hsapiens.UCSC.hg38.knownGene")))
+    (build-system r-build-system)
+    (propagated-inputs
+     `(("r-genomicfeatures" ,r-genomicfeatures)))
+    (home-page
+     "https://bioconductor.org/packages/TxDb.Hsapiens.UCSC.hg38.knownGene/";)
+    (synopsis "Annotation package for human genome in TxDb format")
+    (description
+     "This package provides an annotation database of Homo sapiens genome
+data.  It is derived from the UCSC hg38 genome and based on the \"knownGene\"
+track.  The database is exposed as a @code{TxDb} object.")
+    (license license:artistic2.0)))
+
 (define-public r-txdb-mmusculus-ucsc-mm9-knowngene
   (package
     (name "r-txdb-mmusculus-ucsc-mm9-knowngene")