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References: <20220321191918.18123-1-madalinionel.patrascu@mdc-berlin.de> In-Reply-To: <20220321191918.18123-1-madalinionel.patrascu@mdc-berlin.de> Resent-From: =?utf-8?b?TcSDZMSDbGlu?= Ionel =?utf-8?b?UGF0cmHImWN1?= Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Tue, 22 Mar 2022 10:35:01 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 54511 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: <54511@debbugs.gnu.org> Received: via spool by 54511-submit@debbugs.gnu.org id=B54511.164794529426094 (code B ref 54511); Tue, 22 Mar 2022 10:35:01 +0000 Received: (at 54511) by debbugs.gnu.org; 22 Mar 2022 10:34:54 +0000 Received: from localhost ([127.0.0.1]:39252 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1nWbqn-0006mn-Of for submit@debbugs.gnu.org; Tue, 22 Mar 2022 06:34:54 -0400 Received: from c2062.mx.srv.dfn.de ([194.95.238.172]:48919) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1nWbql-0006mZ-HS for 54511@debbugs.gnu.org; Tue, 22 Mar 2022 06:34:52 -0400 Received: from localhost (localhost [127.0.0.1]) by c2062.mx.srv.dfn.de (Postfix) with ESMTP id D30CD3000D9 for <54511@debbugs.gnu.org>; Tue, 22 Mar 2022 11:34:44 +0100 (CET) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/simple; d=mdc-berlin.de; h= content-type:content-type:content-transfer-encoding:mime-version :x-mailer:message-id:date:date:subject:subject:from:from :received:received:received; s=mdc; t=1647945283; x=1649759684; bh=YhRuTsXP+14ztNQ2kstIHAz8G/eNDTWzjJUsC67PVw4=; b=SZcc/WSSuOH/ zCakK1Kush6F+IR/10XIFTqMao43q4V6AP+wmP61q4JWYeLGEoeSBdU1JDFEFBrC XmT05R8TbSPp2Rja0Isp/pm/aGEmVTzjytzmqyofmeJrHhaX8qZAGIaxMd/gEnuk xRNAC4W1H2FZz9Y2Byqe/ToGMjV1rQQ= Received: from c2062.mx.srv.dfn.de ([127.0.0.1]) by localhost (mgw4-erl.srv.dfn.de [127.0.0.1]) (amavisd-new, port 20134) with ESMTP id 1UKaS7VqAUS6 for <54511@debbugs.gnu.org>; Tue, 22 Mar 2022 11:34:43 +0100 (CET) Received: from SW-IT-P-EX4.mdc-berlin.net (mgw4.mdc-berlin.de [141.80.113.62]) by c2062.mx.srv.dfn.de (Postfix) with ESMTPS for <54511@debbugs.gnu.org>; Tue, 22 Mar 2022 11:34:43 +0100 (CET) Received: from Guix-Ubuntu18.04 (141.80.113.106) by SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) with Microsoft SMTP Server (version=TLS1_2, cipher=TLS_ECDHE_RSA_WITH_AES_256_GCM_SHA384) id 15.1.2375.24; Tue, 22 Mar 2022 11:34:43 +0100 From: =?utf-8?b?TcSDZMSDbGlu?= Ionel =?utf-8?b?UGF0cmHImWN1?= Date: Tue, 22 Mar 2022 11:34:31 +0100 Message-ID: <20220322103431.19798-1-madalinionel.patrascu@mdc-berlin.de> X-Mailer: git-send-email 2.34.0 MIME-Version: 1.0 X-Originating-IP: [141.80.113.106] X-ClientProxiedBy: SW-IT-P-EX1.mdc-berlin.net (141.80.113.54) To SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-8.6.1018-26786.007 X-TM-AS-Result: No-10--8.820400-5.000000 X-TMASE-MatchedRID: SzbEz7SZt2v/R1NSMc2qCU7nLUqYrlslFIuBIWrdOePfUZT83lbkEEQB DVDzvZj1WOleps/sTswue6riVYm/hx1hN+DNBjvOa87CDXaKRVILwteD+QnyUBHfiujuTbedJEb gebEoSmXklvPIaBvBZQp3Fx4qZRwn9EH0bSIeT7kFxov+3JYvYzYvC/PFFfSA+YB+orOcj/CYDT IhMw3OOX0tCKdnhB589yM15V5aWpj6C0ePs7A07YFInLyeDAoZMItnTUBNm76M9JdwcUAgPEHop o2bjKL2XwXkj3kbmGVZ3EoVdVUiIg== X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--8.820400-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-8.6.1018-26786.007 X-TM-SNTS-SMTP: 7A4D22BDE50246736061A0990A66B1CFD6C030B8F2F21DD069B9591C47172FC62000:F 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-cytobackbone): New variable. --- gnu/packages/bioconductor.scm | 42 +++++++++++++++++++++++++++++++++++ 1 file changed, 42 insertions(+) diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 55d397e5cf..bf123ef7cc 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -10066,6 +10066,48 @@ (define-public r-consensusclusterplus cluster count and membership by stability evidence in unsupervised analysis.") (license license:gpl2))) +;; It doesn't have a system of releases. This package depends on a bioconductor +;; input. +(define-public r-cytobackbone + (let ((commit "4c1a0a35cc5ae1f8f516127cec92351d96fe26e7") (revision "1")) + (package + (name "r-cytobackbone") + (version (git-version "1.0.0" revision commit)) + (source (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/tchitchek-lab/CytoBackBone") + (commit commit))) + (file-name (git-file-name name version)) + (sha256 + (base32 + "0ahiad14zcgdk42xzw5xryic2ibn2l8lkrcdvl2b5sz2js028yb3")))) + (properties `((upstream-name . "CytoBackBone"))) + (build-system r-build-system) + (propagated-inputs + (list r-flowcore + r-flowutils + r-fnn + r-ggplot2 + r-preprocesscore)) + (native-inputs (list r-knitr)) + (home-page "https://github.com/tchitchek-lab/CytoBackBone") + (synopsis + "Merging of phenotype information from different cytometric profiles") + (description + "This package implements an algorithm which increases the number of +simultaneously measurable markers and in this way helps with study of the +immune responses. Thus, the present algorithm, named @code{CytoBackBone}, +allows combining phenotypic information of cells from different cytometric +profiles obtained from different cytometry panels. This computational approach +is based on the principle that each cell has its own phenotypic and functional +characteristics that can be used as an identification card. +@code{CytoBackBone} uses a set of predefined markers, that we call the +backbone, to define this identification card. The phenotypic information of +cells with similar identification cards in the different cytometric profiles is +then merged.") + (license license:gpl2)))) + (define-public r-cytolib (package (name "r-cytolib")