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

Previous Next

To add a comment to this bug, you must first unarchive it, by sending
a message to control AT debbugs.gnu.org, with unarchive 74212 in the body.
You can then email your comments to 74212 AT debbugs.gnu.org in the normal way.

Toggle the display of automated, internal messages from the tracker.

Message #5 received at submit <at> debbugs.gnu.org (full text, mbox):

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

Message #10 received at 74212-done <at> debbugs.gnu.org (full text, mbox):

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

Previous Next

GNU bug tracking system
Copyright (C) 1999 Darren O. Benham, 1997,2003 nCipher Corporation Ltd, 1994-97 Ian Jackson.