GNU bug report logs - #57339
[PATCH] gnu: Add r-pcaexplorer.

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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#57339: closed ([PATCH] gnu: Add r-pcaexplorer.)
Date: Tue, 23 Aug 2022 09:54:02 +0000

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Your message dated Tue, 23 Aug 2022 11:53:30 +0200
with message-id <87wnazz3oa.fsf <at> elephly.net>
and subject line Re: [bug#57339] [PATCH] gnu: Add r-pcaexplorer.
has caused the debbugs.gnu.org bug report #57339,
regarding [PATCH] gnu: Add r-pcaexplorer.
to be marked as done.

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help-debbugs <at> gnu.org.)


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57339: https://debbugs.gnu.org/cgi/bugreport.cgi?bug=57339
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From: Mădălin Ionel Patrașcu
 <madalinionel.patrascu <at> mdc-berlin.de>
To: <guix-patches <at> gnu.org>
Subject: [PATCH] gnu: Add r-pcaexplorer.
Date: Mon, 22 Aug 2022 12:59:41 +0200

* gnu/packages/bioconductor.scm (r-pcaexplorer): New variable.
---
 gnu/packages/bioconductor.scm | 55 +++++++++++++++++++++++++++++++++++
 1 file changed, 55 insertions(+)

diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 7d2ca413e9..cfcad75001 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -5049,6 +5049,61 @@ (define-public r-organismdbi
 the fact that each of these packages implements a select methods.")
     (license license:artistic2.0)))
 
+(define-public r-pcaexplorer
+  (package
+    (name "r-pcaexplorer")
+    (version "2.22.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (bioconductor-uri "pcaExplorer" version))
+       (sha256
+        (base32
+         "0xkafpi6y5n8hljdaj183hd5z4ik7lpbklg2cbx1hwfz4n4hh1bl"))))
+    (properties `((upstream-name . "pcaExplorer")))
+    (build-system r-build-system)
+    (propagated-inputs
+     (list r-annotationdbi
+           r-base64enc
+           r-biomart
+           r-deseq2
+           r-dt
+           r-genefilter
+           r-genomicranges
+           r-ggplot2
+           r-ggrepel
+           r-go-db
+           r-gostats
+           r-heatmaply
+           r-iranges
+           r-knitr
+           r-limma
+           r-nmf
+           r-pheatmap
+           r-plotly
+           r-plyr
+           r-rmarkdown
+           r-s4vectors
+           r-scales
+           r-shiny
+           r-shinyace
+           r-shinybs
+           r-shinydashboard
+           r-summarizedexperiment
+           r-threejs
+           r-tidyr
+           r-topgo))
+    (native-inputs (list r-knitr))
+    (home-page "https://github.com/federicomarini/pcaExplorer")
+    (synopsis
+     "Interactive Visualization of RNA-seq Data Using a Principal Components Approach")
+    (description
+     "This package provides functionality for interactive visualization of RNA-seq
+datasets based on Principal Components Analysis.  The methods provided allow for
+quick information extraction and effective data exploration.  A Shiny
+application encapsulates the whole analysis.")
+    (license license:expat)))
+
 (define-public r-pcamethods
   (package
     (name "r-pcamethods")

base-commit: 706b3ef38b2f7ce9f05aa56e2eaaaf1c19e25f90
-- 
2.37.2

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From: Ricardo Wurmus <rekado <at> elephly.net>
To: Mădălin Ionel Patrașcu
 <madalinionel.patrascu <at> mdc-berlin.de>
Cc: 57339-done <at> debbugs.gnu.org, debbugs-submit <at> debbugs.gnu.org
Subject: Re: [bug#57339] [PATCH] gnu: Add r-pcaexplorer.
Date: Tue, 23 Aug 2022 11:53:30 +0200

Mădălin Ionel Patrașcu <madalinionel.patrascu <at> mdc-berlin.de> writes:

> * gnu/packages/bioconductor.scm (r-pcaexplorer): New variable.

Applied, thanks!

-- 
Ricardo

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