01/03: gnu: Add r-lefser.

[guix-commits]

rekado pushed a commit to branch master
in repository guix.

commit 62ed97c07d83f58fb051a77b6d3b79b54e579e09
Author: Ricardo Wurmus <rekado@elephly.net>
AuthorDate: Tue May 2 10:13:08 2023 +0200

    gnu: Add r-lefser.
    
    * gnu/packages/bioconductor.scm (r-lefser): New variable.
---
 gnu/packages/bioconductor.scm | 23 +++++++++++++++++++++++
 1 file changed, 23 insertions(+)

diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 190cadcc97..31bd4e24b0 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -12320,6 +12320,29 @@ background correction, and quality control features 
for GoldenGate, Infinium,
 and Infinium HD arrays are also included.")
     (license license:gpl2)))
 
+(define-public r-lefser
+  (package
+    (name "r-lefser")
+    (version "1.10.0")
+    (source (origin
+              (method url-fetch)
+              (uri (bioconductor-uri "lefser" version))
+              (sha256
+               (base32
+                "0wi70b4k7s0xj7bh46s0x0fckqc5qspzq8k4k913vg6cnhqgw2dd"))))
+    (properties `((upstream-name . "lefser")))
+    (build-system r-build-system)
+    (propagated-inputs (list r-coin r-ggplot2 r-mass r-summarizedexperiment))
+    (native-inputs (list r-knitr))
+    (home-page "https://github.com/waldronlab/lefser";)
+    (synopsis "LEfSE method for microbiome biomarker discovery")
+    (description
+     "Lefser is an implementation in R of the popular \"LDA Effect
+Size\" (LEfSe) method for microbiome biomarker discovery.  It uses the
+Kruskal-Wallis test, Wilcoxon-Rank Sum test, and Linear Discriminant Analysis
+to find biomarkers of groups and sub-groups.")
+    (license license:artistic2.0)))
+
 (define-public r-lumi
   (package
     (name "r-lumi")