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authorHong Li <hli@mdc-berlin.de>2022-03-29 07:04:02 +0000
committerRicardo Wurmus <rekado@elephly.net>2022-04-06 11:43:46 +0200
commite3e3381fdbc56f351063d9b4a49e99645b20d7d3 (patch)
tree2bb1f1416f9026b7510e09d0567631fa200485ae /gnu
parent730ac9ab85b4a7662558d5158b1a7e02afdd65c3 (diff)
gnu: Add r-rnaseqdtu.
* gnu/packages/bioinformatics.scm (r-rnaseqdtu): New variable. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
Diffstat (limited to 'gnu')
-rw-r--r--gnu/packages/bioinformatics.scm37
1 files changed, 37 insertions, 0 deletions
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"))