01/02: gnu: Add r-fishpond.

[guix-commits]

rekado pushed a commit to branch master
in repository guix.

commit f180a5990b133790fbf7f60fb9c9ea4f8fa98f08
Author: Mădălin Ionel Patrașcu <madalinionel.patrascu@mdc-berlin.de>
AuthorDate: Fri Oct 14 19:01:42 2022 +0200

    gnu: Add r-fishpond.
    
    * gnu/packages/bioconductor.scm (r-fishpond): New variable.
---
 gnu/packages/bioconductor.scm | 38 ++++++++++++++++++++++++++++++++++++++
 1 file changed, 38 insertions(+)

diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index b323541f82..65df5d1f11 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -14585,6 +14585,44 @@ data manipulation and visualization.")
 objects from the @code{graph} package.")
     (license license:epl1.0)))
 
+(define-public r-fishpond
+  (package
+    (name "r-fishpond")
+    (version "2.2.0")
+    (source (origin
+              (method url-fetch)
+              (uri (bioconductor-uri "fishpond" version))
+              (sha256
+               (base32
+                "0svp4yh0srhzbbxy1grchzdd9yzchadjp3d2sy2n9xpwxzpkhrym"))))
+    (properties `((upstream-name . "fishpond")))
+    (build-system r-build-system)
+    (inputs (list zlib))
+    (propagated-inputs
+     (list r-abind
+           r-genomicranges
+           r-gtools
+           r-iranges
+           r-jsonlite
+           r-matrix
+           r-matrixstats
+           r-qvalue
+           r-rcpp
+           r-s4vectors
+           r-singlecellexperiment
+           r-summarizedexperiment
+           r-svmisc))
+    (native-inputs (list r-knitr))
+    (home-page "https://github.com/mikelove/fishpond";)
+    (synopsis "Downstream methods and tools for expression data")
+    (description
+     "The @code{fishpond} package contains methods for differential transcript
+and gene expression analysis of RNA-seq data using inferential replicates for
+uncertainty of abundance quantification, as generated by Gibbs sampling or
+bootstrap sampling.  Also the package contains a number of utilities for
+working with Salmon and Alevin quantification files.")
+    (license license:gpl2)))
+
 (define-public r-fithic
   (package
     (name "r-fithic")