02/09: gnu: Add r-jetset.

[guix-commits]

rekado pushed a commit to branch master
in repository guix.

commit a81e20b18a4503c1b4a771e5543845b6ddb932d5
Author: zimoun <zimon.toutoune@gmail.com>
AuthorDate: Tue Jan 18 18:54:11 2022 +0100

    gnu: Add r-jetset.
    
    * gnu/packages/bioconductor.scm (r-jetset): New variable.
---
 gnu/packages/bioconductor.scm | 27 +++++++++++++++++++++++++++
 1 file changed, 27 insertions(+)

diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 682e85f901..5ab51a74fa 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -1963,6 +1963,33 @@ the weighted combination of published signatures that, 
when summed, most
 closely reconstructs the mutational profile.")
     (license license:gpl2+)))
 
+;; This is a CRAN package, but it depends on Bioconductor packages.
+(define-public r-jetset
+  (package
+    (name "r-jetset")
+    (version "3.4.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (cran-uri "jetset" version))
+       (sha256
+        (base32 "0c99h5npsv2gf5d59s4qhkaqmjhbwa3prcykk24wzhnpfq6y6xhp"))))
+    (properties `((upstream-name . "jetset")))
+    (build-system r-build-system)
+    (propagated-inputs (list r-annotationdbi r-org-hs-eg-db))
+    (home-page "http://www.cbs.dtu.dk/biotools/jetset/";)
+    (synopsis "One-to-one gene-probeset mapping for Affymetrix human 
microarrays")
+    (description
+     "This package provides a one-to-one mapping from gene to \"best\" probe
+set for four Affymetrix human gene expression microarrays: hgu95av2, hgu133a,
+hgu133plus2, and u133x3p.  On Affymetrix gene expression microarrays, a single
+gene may be measured by multiple probe sets.  This can present a mild
+conundrum when attempting to evaluate a gene \"signature\" that is defined by
+gene names rather than by specific probe sets.  This package also includes the
+pre-calculated probe set quality scores that were used to define the
+mapping.")
+    (license license:artistic2.0)))
+
 ;; This is a CRAN package, but it depends on Bioconductor packages.
 (define-public r-nmf
   (package