From: zimoun <zimon.toutoune@gmail.com>
To: 53349@debbugs.gnu.org
Cc: zimoun <zimon.toutoune@gmail.com>
Subject: [bug#53349] [PATCH 2/9] gnu: Add r-jetset.
Date: Tue, 18 Jan 2022 18:54:11 +0100 [thread overview]
Message-ID: <20220118175418.1559782-2-zimon.toutoune@gmail.com> (raw)
In-Reply-To: <20220118175418.1559782-1-zimon.toutoune@gmail.com>
* gnu/packages/bioconductor.scm (r-jetset): New variable.
---
gnu/packages/bioconductor.scm | 27 +++++++++++++++++++++++++++
1 file changed, 27 insertions(+)
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 7194e8b0e7..935c958cd0 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -1965,6 +1965,33 @@ (define-public r-deconstructsigs
closely reconstructs the mutational profile.")
(license license:gpl2+)))
+;; This is a CRAN package, but it depends on Bioconductor packages.
+(define-public r-jetset
+ (package
+ (name "r-jetset")
+ (version "3.4.0")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (cran-uri "jetset" version))
+ (sha256
+ (base32 "0c99h5npsv2gf5d59s4qhkaqmjhbwa3prcykk24wzhnpfq6y6xhp"))))
+ (properties `((upstream-name . "jetset")))
+ (build-system r-build-system)
+ (propagated-inputs (list r-annotationdbi r-org-hs-eg-db))
+ (home-page "http://www.cbs.dtu.dk/biotools/jetset/")
+ (synopsis "One-to-one gene-probeset mapping for Affymetrix human microarrays")
+ (description
+ "This package provides a one-to-one mapping from gene to \"best\" probe
+set for four Affymetrix human gene expression microarrays: hgu95av2, hgu133a,
+hgu133plus2, and u133x3p. On Affymetrix gene expression microarrays, a single
+gene may be measured by multiple probe sets. This can present a mild
+conundrum when attempting to evaluate a gene \"signature\" that is defined by
+gene names rather than by specific probe sets. This package also includes the
+pre-calculated probe set quality scores that were used to define the
+mapping.")
+ (license license:artistic2.0)))
+
;; This is a CRAN package, but it depends on Bioconductor packages.
(define-public r-nmf
(package
--
2.34.0
next prev parent reply other threads:[~2022-01-18 18:06 UTC|newest]
Thread overview: 12+ messages / expand[flat|nested] mbox.gz Atom feed top
2022-01-18 17:51 [bug#53349] [PATCH 0/9] Add 2 bioinformatics R packages zimoun
2022-01-18 17:54 ` [bug#53349] [PATCH 1/9] gnu: r-org-dr-eg-db: Update to 3.14.0 zimoun
2022-01-18 17:54 ` zimoun [this message]
2022-01-18 17:54 ` [bug#53349] [PATCH 3/9] gnu: Add r-hgu133plus2-db zimoun
2022-01-18 17:54 ` [bug#53349] [PATCH 4/9] gnu: Add r-chorddiag zimoun
2022-01-18 17:54 ` [bug#53349] [PATCH 5/9] gnu: Add r-scico zimoun
2022-01-18 17:54 ` [bug#53349] [PATCH 6/9] gnu: Add r-add2ggplot zimoun
2022-01-18 17:54 ` [bug#53349] [PATCH 7/9] gnu: Add r-rlist zimoun
2022-01-18 17:54 ` [bug#53349] [PATCH 8/9] gnu: Add r-icellnet zimoun
2022-01-18 17:54 ` [bug#53349] [PATCH 9/9] gnu: Add r-scseqcomm zimoun
2022-01-21 13:58 ` bug#53349: [PATCH 0/9] Add 2 bioinformatics R packages Ricardo Wurmus
2022-01-24 14:08 ` [bug#53349] " zimoun
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