GNU bug report logs - #61891
[PATCH] gnu: Add r-biglm, r-cplm, r-som, r-chemometrics, r-metagenomeseq, r-maaslin2, r-mmuphin.

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From: Mădălin Ionel Patrașcu
 <madalinionel.patrascu <at> mdc-berlin.de>
To: <61891 <at> debbugs.gnu.org>
Subject: [bug#61891] 
Date: Wed, 1 Mar 2023 08:23:41 +0100

Date: Thu, 23 Feb 2023 01:35:43 +0100
Subject: [PATCH 5/7] gnu: Add r-metagenomeseq.

* gnu/packages/bioconductor.scm (r-metagenomeseq): New variable.
---
 gnu/packages/bioconductor.scm | 33 +++++++++++++++++++++++++++++++++
 1 file changed, 33 insertions(+)

diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 4b5ec7db28..7de5750e09 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -6644,6 +6644,39 @@ (define-public r-maser
 and visualizaton of alternative splicing events generated by rMATS.")
     (license license:expat)))
 
+(define-public r-metagenomeseq
+  (package
+    (name "r-metagenomeseq")
+    (version "1.40.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (bioconductor-uri "metagenomeSeq" version))
+       (sha256
+        (base32 "01wjw4kcm8ysa5sn3cqg4a9i5pyksnwmbdqp5fr6n2l9hllkc9jy"))))
+    (properties `((upstream-name . "metagenomeSeq")))
+    (build-system r-build-system)
+    (propagated-inputs
+     (list r-biobase
+           r-foreach
+           r-glmnet
+           r-gplots
+           r-limma
+           r-matrix
+           r-matrixstats
+           r-rcolorbrewer
+           r-wrench))
+    (native-inputs (list r-knitr))
+    (home-page "https://github.com/HCBravoLab/metagenomeSeq")
+    (synopsis "Statistical analysis for sparse high-throughput sequencing")
+    (description
+     "MetagenomeSeq is designed to determine features (be it @acronym{OTU, Operational
+Taxanomic Unit}, species, etc.) that are differentially abundant between two or
+more groups of multiple samples.  This package is designed to address the effects
+of both normalization and under-sampling of microbial communities on disease
+association detection and the testing of feature correlations.")
+    (license license:artistic2.0)))
+
 (define-public r-metaneighbor
   (package
     (name "r-metaneighbor")
-- 
2.39.1

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