03/03: gnu: Add r-rnaseqdtu.

[guix-commits]

rekado pushed a commit to branch master
in repository guix.

commit e3e3381fdbc56f351063d9b4a49e99645b20d7d3
Author: Hong Li <hli@mdc-berlin.de>
AuthorDate: Tue Mar 29 07:04:02 2022 +0000

    gnu: Add r-rnaseqdtu.
    
    * gnu/packages/bioinformatics.scm (r-rnaseqdtu): New variable.
    
    Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
---
 gnu/packages/bioinformatics.scm | 37 +++++++++++++++++++++++++++++++++++++
 1 file changed, 37 insertions(+)

diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index e9778831d2..106b25a50b 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -9009,6 +9009,43 @@ for analyzing gene-level association tests in 
meta-analyses for binary
 trait.")
     (license license:gpl3)))
 
+(define-public r-rnaseqdtu
+  (let ((commit "5bee1e769d2e1dc6a3f1cecb78078050eeb5b9ac")
+        (revision "1"))
+    (package
+      (name "r-rnaseqdtu")
+      (version (git-version "2.0" revision commit))
+      (source
+       (origin
+         (method git-fetch)
+         (uri (git-reference
+               (url "https://github.com/mikelove/rnaseqDTU/";)
+               (commit commit)))
+         (file-name (git-file-name name version))
+         (sha256
+          (base32 "0jfi1ydsk8m5nadwnih48v87nnxdc7s3f0pny4axmnj40dd42as0"))))
+      (properties `((upstream-name . "rnaseqDTU")))
+      (build-system r-build-system)
+      (propagated-inputs
+       (list r-deseq2
+             r-devtools
+             r-dexseq
+             r-drimseq
+             r-edger
+             r-rafalib
+             r-stager))
+      (native-inputs (list r-knitr))
+      (home-page "https://github.com/mikelove/rnaseqDTU/";)
+      (synopsis "RNA-seq workflow for differential transcript usage")
+      (description
+       "This package provides an RNA-seq workflow for differential transcript
+usage (DTU) following Salmon quantification.  This workflow performs a DTU
+analysis on simulated data.  It also shows how to use stageR to perform
+two-stage testing of DTU, a statistical framework to screen at the gene level
+and then confirm which transcripts within the significant genes show evidence
+of DTU.")
+      (license license:artistic2.0))))
+
 (define-public r-dropbead
   (let ((commit "d746c6f3b32110428ea56d6a0001ce52a251c247")
         (revision "2"))