GNU bug report logs - #74212
[PATCH] gnu: Add r-seuratextend.

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From: help-debbugs <at> gnu.org (GNU bug Tracking System)
To: Ricardo Wurmus <rekado <at> elephly.net>
Cc: tracker <at> debbugs.gnu.org
Subject: bug#74212: closed ([PATCH] gnu: Add r-seuratextend.)
Date: Wed, 06 Nov 2024 10:50:02 +0000

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Your message dated Wed, 06 Nov 2024 11:49:24 +0100
with message-id <871pzok56z.fsf <at> elephly.net>
and subject line Re: [bug#74212] [PATCH] gnu: Add r-seuratextend.
has caused the debbugs.gnu.org bug report #74212,
regarding [PATCH] gnu: Add r-seuratextend.
to be marked as done.

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74212: https://debbugs.gnu.org/cgi/bugreport.cgi?bug=74212
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From: Navid Afkhami <navid.afkhami <at> mdc-berlin.de>
To: <guix-patches <at> gnu.org>
Cc: Navid Afkhami <navid.afkhami <at> mdc-berlin.de>
Subject: [PATCH] gnu: Add r-seuratextend.
Date: Tue, 5 Nov 2024 16:49:39 +0000

* gnu/packages/cran.scm (r-seuratextend): New variable.

Change-Id: I9ce0d90a2f05d4e074459046c380849cf9f63978
---
 gnu/packages/cran.scm | 47 +++++++++++++++++++++++++++++++++++++++++++
 1 file changed, 47 insertions(+)

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index ab369c116c..b312c30099 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -38320,6 +38320,53 @@ (define-public r-scattermore
 data to rasters.  It speeds up plotting of data with millions of points.")
     (license license:gpl3+)))
 
+(define-public r-seuratextend
+  (let ((commit "5382e921f7b365c7b75b20d07cb455e4390fe36f")
+        (revision "1"))
+    (package
+      (name "r-seuratextend")
+      (version (git-version "1.0.7" revision commit))
+      (source
+       (origin
+         (method git-fetch)
+         (uri (git-reference
+               (url "https://github.com/huayc09/SeuratExtend")
+               (commit commit)))
+         (file-name (git-file-name name version))
+         (sha256
+          (base32 "1rlx20jyfdrymxn8b9dsf9n9jk9rwjjx1wy2f00layvd57g9ch2q"))))
+      (properties `((upstream-name . "SeuratExtend")))
+      (build-system r-build-system)
+      (propagated-inputs (list r-biocmanager
+                               r-dplyr
+                               r-ggplot2
+                               r-ggpubr
+                               r-glue
+                               r-hdf5r
+                               r-magrittr
+                               r-mosaic
+                               r-purrr
+                               r-remotes
+                               r-reshape2
+                               r-reticulate
+                               r-rlist
+                               r-scales
+                               r-seurat
+                               r-seuratextenddata
+                               r-seuratobject
+                               r-tidyr))
+      (native-inputs (list r-knitr))
+      (home-page "https://github.com/huayc09/SeuratExtend")
+      (synopsis "Enhanced toolkit for scRNA-seq analysis")
+      (description
+       "This package is designed to improve and simplify the analysis of scRNA-seq data.
+It uses the Seurat object for this purpose.  It provides an array of
+enhanced visualization tools, an integrated functional and pathway
+analysis pipeline, seamless integration with popular Python tools,
+and a suite of utility functions to aid in data manipulation and
+presentation.")
+      (license license:gpl3+))))
+
 (define-public r-seuratextenddata
   (let ((commit "e7f17d4bacca436705b06b2cd0c879f83add9271")
         (revision "1"))

base-commit: 4c56d0cccdc44e12484b26332715f54768738c5f
prerequisite-patch-id: 8f31c5ea3685b59fb6907a9582c0ca537c9c38bd
-- 
2.43.0

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From: Ricardo Wurmus <rekado <at> elephly.net>
To: Navid Afkhami <navid.afkhami <at> mdc-berlin.de>
Cc: 74212-done <at> debbugs.gnu.org, Laurent Gatto <laurent.gatto <at> gmail.com>,
 Simon Tournier <zimon.toutoune <at> gmail.com>
Subject: Re: [bug#74212] [PATCH] gnu: Add r-seuratextend.
Date: Wed, 06 Nov 2024 11:49:24 +0100

Navid Afkhami <navid.afkhami <at> mdc-berlin.de> writes:

> * gnu/packages/cran.scm (r-seuratextend): New variable.

Thanks for the patch!  I moved the package definition to bioinformatics.

-- 
Ricardo

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