Subject: [PATCH] gnu: Add r-acme.
From: Mădălin Ionel Patrașcu<[email-masked]>
To: <[email-masked]>
Date: Wed, 13 Apr 2022 16:12:58 +0200
List-Id: <debbugs-submit.debbugs.gnu.org>

* gnu/packages/bioconductor.scm (r-acme): New variable.
---
 gnu/packages/bioconductor.scm | 30 ++++++++++++++++++++++++++++++
 1 file changed, 30 insertions(+)

diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 803437a033..69e9e14dd3 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -11642,6 +11642,36 @@ (define-public r-universalmotif
 motifs, and others.")
     (license license:gpl3)))
 
+;;  The homepage (http://watson.nci.nih.gov/~sdavis) seems to be inaccessible
+;; anymore so I changed it to the Bioconductor page of the package.
+(define-public r-acme
+  (package
+    (name "r-acme")
+    (version "2.50.0")
+    (source (origin
+              (method url-fetch)
+              (uri (bioconductor-uri "ACME" version))
+              (sha256
+               (base32
+                "0h4bqbbqcwc938q7lysk5l35f64xz9d1bsniv2wshmlr4rr0zpcg"))))
+    (properties `((upstream-name . "ACME")))
+    (build-system r-build-system)
+    (propagated-inputs (list r-biobase r-biocgenerics))
+    (home-page "https://bioconductor.org/packages/aCGH/")
+    (synopsis "Calculating microarray enrichment")
+    (description
+     "This package implements
+@dfn{algorithms for calculating microarray enrichment} (ACME), and it is a set
+of tools for analysing tiling array of
+@dfn{combined chromatin immunoprecipitation with DNA microarray} (ChIP/chip),
+DNAse hypersensitivity, or other experiments that result in regions of the
+genome showing enrichment.  It does not rely on a specific array technology
+(although the array should be a tiling array), is very general (can be applied
+in experiments resulting in regions of enrichment), and is very insensitive to
+array noise or normalization methods.  It is also very fast and can be applied
+on whole-genome tiling array experiments quite easily with enough memory.")
+    (license license:gpl2+)))
+
 ;; This is a CRAN package, but it depends on Bioconductor packages, so we put
 ;; it here.
 (define-public r-activedriverwgs
-- 
2.34.0