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[bug#62428]
From: |
Mădălin Ionel Patrașcu |
Subject: |
[bug#62428] |
Date: |
Sat, 25 Mar 2023 00:18:50 +0100 |
Date: Fri, 24 Mar 2023 00:51:48 +0100
Subject: [PATCH 04/14] gnu: Add r-apalyzer.
* gnu/packages/bioconductor.scm (r-apalyzer): New variable.
---
gnu/packages/bioconductor.scm | 45 +++++++++++++++++++++++++++++++++++
1 file changed, 45 insertions(+)
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index c58613bea3..3ae0dba919 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -9354,6 +9354,51 @@ (define r-rcppnumerical
@code{Rcpp}.")
(license license:gpl2+)))
+(define-public r-apalyzer
+ (package
+ (name "r-apalyzer")
+ (version "1.12.0")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "APAlyzer" version))
+ (sha256
+ (base32 "1iaz9ircfh5x3z5pibn5vnd4lbbr7m5ypk97xnizn22z41aqrxn3"))))
+ (properties `((upstream-name . "APAlyzer")))
+ (build-system r-build-system)
+ (arguments
+ (list
+ #:phases
+ #~(modify-phases %standard-phases
+ (add-before 'install 'change-home-dir
+ (lambda _
+ ;; Change from /homeless-shelter to /tmp for write permission.
+ (setenv "HOME" "/tmp"))))))
+ (propagated-inputs
+ (list r-deseq2
+ r-dplyr
+ r-genomicalignments
+ r-genomicfeatures
+ r-genomicranges
+ r-ggplot2
+ r-ggrepel
+ r-hybridmtest
+ r-repmis
+ r-rsamtools
+ r-rsubread
+ r-rtracklayer
+ r-summarizedexperiment
+ r-tidyr
+ r-variantannotation))
+ (native-inputs (list r-knitr))
+ (home-page "https://github.com/RJWANGbioinfo/APAlyzer/")
+ (synopsis "Toolkit for APA analysis using RNA-seq data")
+ (description
+ "The APAlyzer package performs @acronym{3'UTR, Three Prime Untranslated
+Region} @acronym{APA, Alternative polyadenylation}, Intronic APA and gene
+expression analysis using RNA-seq data.")
+ (license license:lgpl3)))
+
(define-public r-apeglm
(package
(name "r-apeglm")
--
2.39.2
- [bug#62428] gnu: Add r-anota2seq, r-hybridmtest, r-apalyzer, r-org-sc-sgd-db, r-apcomplex, r-mdqc, , r-parody, r-arraymvout, r-arrayquality, r-beaddatapackr, r-beadarray, r-arrayqualitymetrics, r-repmis, r-setrng.., Mădălin Ionel Patrașcu, 2023/03/24
- [bug#62428] [PATCH 01/14] gnu: Add r-anota2seq., Mădălin Ionel Patrașcu, 2023/03/24
- [bug#62428],
Mădălin Ionel Patrașcu <=
- [bug#62428] [PATCH 05/14] gnu: Add r-org-sc-sgd-db., Mădălin Ionel Patrașcu, 2023/03/24
- [bug#62428] [PATCH 08/14] gnu: Add r-parody., Mădălin Ionel Patrașcu, 2023/03/24
- [bug#62428] [PATCH 03/14] gnu: Add r-hybridmtest., Mădălin Ionel Patrașcu, 2023/03/24
- [bug#62428] [PATCH 09/14] gnu: Add r-arraymvout., Mădălin Ionel Patrașcu, 2023/03/24
- [bug#62428] [PATCH 11/14] gnu: Add r-setrng., Mădălin Ionel Patrașcu, 2023/03/24
- [bug#62428] [PATCH 07/14] gnu: Add r-mdqc., Mădălin Ionel Patrașcu, 2023/03/24
- [bug#62428] [PATCH 02/14] gnu: Add r-repmis., Mădălin Ionel Patrașcu, 2023/03/24
- [bug#62428] [PATCH 06/14] gnu: Add r-apcomplex., Mădălin Ionel Patrașcu, 2023/03/24
- [bug#62428] [PATCH 10/14] gnu: Add r-arrayquality., Mădălin Ionel Patrașcu, 2023/03/24
- [bug#62428] [PATCH 14/14] gnu: Add r-arrayqualitymetrics., Mădălin Ionel Patrașcu, 2023/03/24
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