From: Mădălin Ionel Patrașcu<[email-masked]>
Date: Wed, 1 Mar 2023 08:23:43 +0100

Date: Wed, 1 Mar 2023 08:16:27 +0100
Subject: [PATCH 7/7] gnu: Add r-mmuphin.

* gnu/packages/bioconductor.scm (r-mmuphin): New variable.
---
 gnu/packages/bioconductor.scm | 40 +++++++++++++++++++++++++++++++++++
 1 file changed, 40 insertions(+)

diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index c7f623343e..afe969e5de 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -6811,6 +6811,46 @@ (define-public r-methylkit
 TAB-Seq.")
     (license license:artistic2.0)))
 
+(define-public r-mmuphin
+  (package
+    (name "r-mmuphin")
+    (version "1.12.1")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (bioconductor-uri "MMUPHin" version))
+       (sha256
+        (base32 "0vpap3avmrjy187s3dva6f008al6d935kpdf816xzl5gxl7zvf62"))))
+    (properties `((upstream-name . "MMUPHin")))
+    (build-system r-build-system)
+    (arguments
+     (list #:tests? #f)) ;; non deterministic, also it requieres http access
+    (inputs (list glpk))
+    (propagated-inputs
+     (list r-cowplot
+           r-biocstyle
+           r-dplyr
+           r-fpc
+           r-ggplot2
+           r-igraph
+           r-maaslin2
+           r-metafor
+           r-stringr
+           r-tidyr))
+    (native-inputs (list r-knitr))
+    (home-page "https://bioconductor.org/packages/MMUPHin")
+    (synopsis "Meta-analysis with uniform pipeline for heterogeneity in microbiome")
+    (description
+     "MMUPHin is an R package for meta-analysis tasks of microbiome cohorts.  It
+has function interfaces for:
+@itemize
+@item covariate-controlled batch- and cohort effect adjustment;
+@item meta-analysis differential abundance testing;
+@item meta-analysis unsupervised discrete structure (clustering) discovery;
+@item meta-analysis unsupervised continuous structure discovery.
+@end itemize")
+    (license license:expat)))
+
 (define-public r-motifrg
   (package
     (name "r-motifrg")
-- 
2.39.1