From: zimoun <zimon.toutoune@gmail.com>
Date: Wed, 24 Jul 2019 18:21:56 +0000 (+0200)
Subject: gnu: Add r-all.
X-Git-Url: http://git.hcoop.net/jackhill/guix/guix.git/commitdiff_plain/ad8f46c69efd24915d380dba663c9f24746de1fc

gnu: Add r-all.

* gnu/packages/bioconductor.scm (r-all): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
---

diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index e5a2d66b2d..649b64a4d7 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -865,6 +865,34 @@ which were then sequenced to a depth of ~4 million reads per library,
 resulting in a complete gene expression profile for each cell.")
     (license license:artistic2.0)))
 
+(define-public r-all
+  (package
+    (name "r-all")
+    (version "1.26.0")
+    (source (origin
+              (method url-fetch)
+              ;; We cannot use bioconductor-uri here because this tarball is
+              ;; located under "data/experiment/" instead of "bioc/".
+              (uri (string-append "https://www.bioconductor.org/packages/"
+                                  "release/data/experiment/src/contrib/"
+                                  "ALL_" version ".tar.gz"))
+              (sha256
+               (base32
+                "1z7kpjw4ndj6fkxwvhqf3gawhrn26ksrlns7j2c78qzxqmjndik9"))))
+    (properties `((upstream-name . "ALL")))
+    (build-system r-build-system)
+    (propagated-inputs
+     `(("r-biobase" ,r-biobase)))
+    (home-page "https://bioconductor.org/packages/ALL")
+    (synopsis "Acute Lymphoblastic Leukemia data from the Ritz laboratory")
+    (description
+     "The data consist of microarrays from 128 different individuals with
+@dfn{acute lymphoblastic leukemia} (ALL).  A number of additional covariates
+are available.  The data have been normalized (using rma) and it is the
+jointly normalized data that are available here.  The data are presented in
+the form of an @code{exprSet} object.")
+    (license license:artistic2.0)))
+
 
 ;;; Packages