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Resent-From: zimoun Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Tue, 18 Jan 2022 17:55:03 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 53349 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 53349@debbugs.gnu.org Cc: zimoun Received: via spool by 53349-submit@debbugs.gnu.org id=B53349.1642528479388 (code B ref 53349); Tue, 18 Jan 2022 17:55:03 +0000 Received: (at 53349) by debbugs.gnu.org; 18 Jan 2022 17:54:39 +0000 Received: from localhost ([127.0.0.1]:51617 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1n9sgo-000066-Lw for submit@debbugs.gnu.org; Tue, 18 Jan 2022 12:54:38 -0500 Received: from mail-wm1-f51.google.com ([209.85.128.51]:55172) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1n9sgi-0008WF-Oe for 53349@debbugs.gnu.org; Tue, 18 Jan 2022 12:54:34 -0500 Received: by mail-wm1-f51.google.com with SMTP id p18so29475831wmg.4 for <53349@debbugs.gnu.org>; Tue, 18 Jan 2022 09:54:32 -0800 (PST) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=gmail.com; s=20210112; h=from:to:cc:subject:date:message-id:in-reply-to:references :mime-version:content-transfer-encoding; bh=JW+3umfWGt1wr/7ac/ngEJnlI8+3QT3NA2vSDbtnnFg=; b=bbWLUixHymSQkJpfv1lci/jYPoeW8BYNUzKqpQy82M4JvcjOaytDCJ9+13Sqx1D2tX yZ+HUVyaNJbphz4r0UwiREZm60E/OJ8FzlS1VYBnJO1qR+WCKlZFeZDmO57yloVsMFSW Sc/4cW1L9Q7dFMLtoiH8a4d2Bn2S4bYitPm2iCpFE//dnHxGkAgoZVb1BSjjzTU7R9XD RXh6/nH1TCfzBBxq6Zl0tAoKZDvRe5U/7lWmZGnx3kEKw2QOn+exNF2ra6qGEasVvyK6 gpj6X139TfP/WYMJnJ+E+r4qNvCrvE0wHJnLfZ8XcZChpiK+qXKjCXURnXIDy5I6FAch WsUQ== X-Google-DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=1e100.net; s=20210112; h=x-gm-message-state:from:to:cc:subject:date:message-id:in-reply-to :references:mime-version:content-transfer-encoding; bh=JW+3umfWGt1wr/7ac/ngEJnlI8+3QT3NA2vSDbtnnFg=; b=fnYh4ILQSN7umGDlz+EPHaKWR4UECuRBUF1nRhdBKSJEBJ0DbJHiXWJ6J1vaOK3A8t m/sAomL+s6dTIzk595PeOtggcUrtJ6+l1I69ff/6QvOWrbe4xPhIXvhrNqYuk+GSSukK SCGbjMISNhQOZ/nZFumzaR97hy23738zPS4EfLJTw81ExGQJAOyMbyH8YPKs9PvtklSU 2PIU0mYzbfFinTIsQfrDjM+BLOOOKsyrlqxlUj2nD5xdlO1EPMjymcrUQl/ODJHEU0Ev +omorMt2AseyAhgFSy7OC/ENGqW0V/9uJP78tjgFR08iD2AZ/mLrzhwi2ivByM6bKHBf HlYQ== X-Gm-Message-State: AOAM531BUfwLiLthqVWEMAQKabaNBCAYQXT/PpyVHRl43Nu3mXHNg1lc 6p8p7FUUbD06hOCZzyXV+5qxkTSgmKY= X-Google-Smtp-Source: ABdhPJyikvXOiiRLJWlkDP4ujwN4PawW3EO5FfJe0KYo7jnmiRTiJAeWYPvBcJJBTAFk92MIYRnOKg== X-Received: by 2002:a5d:598a:: with SMTP id n10mr18367243wri.582.1642528466973; Tue, 18 Jan 2022 09:54:26 -0800 (PST) Received: from localhost.localdomain ([193.48.40.241]) by smtp.gmail.com with ESMTPSA id v5sm2989529wmh.19.2022.01.18.09.54.26 (version=TLS1_3 cipher=TLS_AES_256_GCM_SHA384 bits=256/256); Tue, 18 Jan 2022 09:54:26 -0800 (PST) From: zimoun Date: Tue, 18 Jan 2022 18:54:11 +0100 Message-Id: <20220118175418.1559782-2-zimon.toutoune@gmail.com> X-Mailer: git-send-email 2.34.0 In-Reply-To: <20220118175418.1559782-1-zimon.toutoune@gmail.com> References: <20220118175418.1559782-1-zimon.toutoune@gmail.com> MIME-Version: 1.0 X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list X-BeenThere: guix-patches@gnu.org List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: guix-patches-bounces+patchwork=mira.cbaines.net@gnu.org Sender: "Guix-patches" X-getmail-retrieved-from-mailbox: Patches * 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