Subject: bug#56147: closed ([PATCH] gnu: Add r-aspli.)

From: [email-masked] (GNU bug Tracking System)
Date: Mon, 31 Oct 2022 20:43:03 +0000

Your bug report

#56147: [PATCH] gnu: Add r-aspli.

which was filed against the guix-patches package, has been closed.

The explanation is attached below, along with your original report.
If you require more details, please reply to [email-masked].

-- 
56147: https://debbugs.gnu.org/cgi/bugreport.cgi?bug=56147
GNU Bug Tracking System
Contact [email-masked] with problems

Subject: [PATCH] gnu: Add r-aspli.
From: Ricardo Wurmus <[email-masked]>
To: [email-masked]
Date: Mon, 31 Oct 2022 21:42:12 +0100
List-Id: <debbugs-submit.debbugs.gnu.org>

Applied, thanks!

-- 
Ricardo

Subject: [PATCH] gnu: Add r-aspli.
From: Mădălin Ionel Patrașcu<[email-masked]>
To: <[email-masked]>
Date: Wed, 22 Jun 2022 16:46:12 +0200
List-Id: <debbugs-submit.debbugs.gnu.org>

* gnu/packages/bioconductor.scm (r-aspli): New variable.
---
 gnu/packages/bioconductor.scm | 48 +++++++++++++++++++++++++++++++++++
 1 file changed, 48 insertions(+)

diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 1e87b190c2..0136d268b3 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -2029,6 +2029,54 @@ (define-public r-aneufinder
 sequencing data.")
     (license license:artistic2.0)))
 
+(define-public r-aspli
+  (package
+    (name "r-aspli")
+    (version "2.6.0")
+    (source (origin
+              (method url-fetch)
+              (uri (bioconductor-uri "ASpli" version))
+              (sha256
+               (base32
+                "1frlcwa8m4imfx6ncav8r8yskyaf4ibha177mfnp9y84w6mphynz"))))
+    (properties `((upstream-name . "ASpli")))
+    (build-system r-build-system)
+    (propagated-inputs
+     (list r-annotationdbi
+           r-biocgenerics
+           r-biocstyle
+           r-data-table
+           r-dt
+           r-edger
+           r-genomicalignments
+           r-genomicfeatures
+           r-genomicranges
+           r-gviz
+           r-htmltools
+           r-igraph
+           r-iranges
+           r-limma
+           r-mass
+           r-pbmcapply
+           r-rsamtools
+           r-s4vectors
+           r-tidyr
+           r-upsetr))
+    (home-page "https://bioconductor.org/packages/ASpli")
+    (synopsis "Analysis of alternative splicing using RNA-Seq")
+    (description
+     "@dfn{AS} (alternative splicing) is a common mechanism of post-transcriptional
+gene regulation in eukaryotic organisms that expands the functional and regulatory
+diversity of a single gene by generating multiple mRNA isoforms that encode
+structurally and functionally distinct proteins.  @code{ASpli} is an integrative
+pipeline and user-friendly @code{R} package that facilitates the analysis of changes
+in both annotated and novel AS events.  @code{ASpli} integrates several independent
+signals in order to deal with the complexity that might arise in splicing
+patterns.")
+    ;;   The authors didn't specify any GPL version in description or in the
+    ;; sources.
+    (license (list license:gpl2+ license:gpl3+))))
+
 (define-public r-biocversion
   (package
     (name "r-biocversion")

base-commit: e74fa406e1043547242a8b67ab9907fea7aae6b9
-- 
2.36.1