diff mbox series

[bug#60959] gnu: Add r-tsis.

Message ID 20230120095521.50160-1-navid.afkhami@mdc-berlin.de
State New
Headers show
Series [bug#60959] gnu: Add r-tsis. | expand

Commit Message

Navid Afkhami Jan. 20, 2023, 9:55 a.m. UTC
* gnu/packages/bioinformatics.scm (r-tsis): New variable.
 gnu/packages/bioinformatics.scm | 31 +++++++++++++++++++++++++++++++
 1 file changed, 31 insertions(+)


Ricardo Wurmus Jan. 20, 2023, 10:07 a.m. UTC | #1
Thank you for the patch, I just applied it!
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diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 86d65d2031..cb5f71c40e 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -8215,6 +8215,37 @@  (define-public r-snapatac
 single cell ATAC-seq sequencing data.")
     (license license:gpl3)))
+(define-public r-tsis
+  (let ((commit "24460298fbe1d26e4da390f6e4f3d4d9d62334dc")
+        (revision "1"))
+    (package
+      (name "r-tsis")
+      (version (git-version "0.2.0" revision commit))
+      (source (origin
+                (method git-fetch)
+                (uri (git-reference
+                      (url "https://github.com/wyguo/TSIS")
+                      (commit commit)))
+                (file-name (git-file-name name version))
+                (sha256
+                 (base32
+                  "17c8i25iwhldvs3c51m0wny40iffm8szzijalpwrxhzbv0xa94rb"))))
+      (properties `((upstream-name . "TSIS")))
+      (build-system r-build-system)
+      (native-inputs (list r-knitr))
+      (home-page "https://github.com/wyguo/TSIS")
+      (synopsis "Time-series isoform switch of alternative splicing")
+      (description
+       "TSIS is used for detecting transcript isoform switches in time-series data.  
+Transcript isoform switches occur when a pair of alternatively spliced isoforms
+reverse the order of their relative expression levels.  TSIS characterizes the
+transcript switch by defining the isoform switch time-points for any pair of 
+transcript isoforms within a gene.  In addition, this tool describes the switch
+using five different features or metrics.  Also it filters the results with user’s
+specifications and visualizes the results using different plots for the user to
+examine further details of the switches.")
+      (license license:gpl3))))
 (define-public r-umi4cpackage
   (let ((commit "88b07d896a137418ba6c31c2474b9dbe1d86fc20")
         (revision "1"))