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Reply-To: bug#59672 <59672@debbugs.gnu.org> Date: Sat, 20 Sep 2025 10:14:18 +0000 retitle 59672 [PATCH] gnu: Add r-metaneighbor. reassign 59672 guix-patches submitter 59672 M=C4=83d=C4=83lin Ionel Patra=C8=99cu severity 59672 normal tag 59672 patch thanks From debbugs-submit-bounces@debbugs.gnu.org Tue Nov 29 03:01:32 2022 Received: (at submit) by debbugs.gnu.org; 29 Nov 2022 08:01:32 +0000 Received: from localhost ([127.0.0.1]:54070 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1ozvYZ-0005SV-Rp for submit@debbugs.gnu.org; Tue, 29 Nov 2022 03:01:32 -0500 Received: from lists.gnu.org ([209.51.188.17]:49980) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1ozvYX-0005SP-E6 for submit@debbugs.gnu.org; Tue, 29 Nov 2022 03:01:30 -0500 Received: from eggs.gnu.org ([2001:470:142:3::10]) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1ozvYW-0004zj-WE for guix-patches@gnu.org; Tue, 29 Nov 2022 03:01:29 -0500 Received: from c2062.mx.srv.dfn.de ([194.95.238.172]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1ozvYU-0005EK-Kw for guix-patches@gnu.org; Tue, 29 Nov 2022 03:01:28 -0500 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; s=mdc; t=1669708868; x=1671523269; bh=1akNGgUDNNqqKbq 3dtUonImqR0jNXDqUee/rp3Xh8U0=; b=UjzQRZz32MBt32POsmlg6yu2zQn2nAD vM7cMhcmSIHcKrLwHYSDq0yocVpANNNV0aAW+P+02V1lGuXvL+mDclmmBYvs0HlR hkrXalAcvmmcXXAq2dgi+ZhvMhb0Df2oVxpfwdTMxKTqhuBJOQwUMkfeWRdGhHlZ 3IOBRq7HRk0I= 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 id 286AA300128 for ; Tue, 29 Nov 2022 09:01:07 +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 15.1.2507.16; Tue, 29 Nov 2022 09:01:07 +0100 From: =?UTF-8?q?M=C4=83d=C4=83lin=20Ionel=20Patra=C8=99cu?= To: Subject: [PATCH] gnu: Add r-metaneighbor. Date: Tue, 29 Nov 2022 09:00:56 +0100 Message-ID: <20221129080056.16623-1-madalinionel.patrascu@mdc-berlin.de> X-Mailer: git-send-email 2.38.1 MIME-Version: 1.0 X-Debbugs-Cc: rekado@elephly.net Content-Transfer-Encoding: 8bit Content-Type: text/plain 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-14.0.0.3092-9.0.1002-27292.006 X-TM-AS-Result: No-10--3.593400-5.000000 X-TMASE-MatchedRID: 54gb2yeIOXT/R1NSMc2qCU7nLUqYrlslFIuBIWrdOeOjEIt+uIPPOAbo TDS3zulAcjTcMkuJPYkZijt1cgK90C/33TWoSUH6194/5X9VfCyAkbY6/7arYOuLH9BII+4qrKs axUiN/ynF+KCpGE37CJsoi2XrUn/Jn6KdMrRsL14qtq5d3cxkNTx61AcxE5RmZABoQYAsDdpfVW PNPH9ahsLrBleh3lByQYD1S2Rya1Uz0YI8wBHvkWUWvdHUkoPALhAj+pVtzBzEADMTQluUpRy5G LOdVfdUWlnOGDS9R2LJpxLBmTXaKShCDgyssE8uo3yYJV8x0OrMUVc0s17dsX/q4TD2v7K1 X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--3.593400-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27292.006 X-TM-SNTS-SMTP: 007DEA65840CC78360A4972D7348A8E4AAFCB3EDF86D63E7A4534DB6E470E7EF2002:F Received-SPF: pass client-ip=194.95.238.172; envelope-from=MadalinIonel.Patrascu@mdc-berlin.de; helo=c2062.mx.srv.dfn.de X-Spam_score_int: -43 X-Spam_score: -4.4 X-Spam_bar: ---- X-Spam_report: (-4.4 / 5.0 requ) BAYES_00=-1.9, DKIM_SIGNED=0.1, DKIM_VALID=-0.1, DKIM_VALID_AU=-0.1, DKIM_VALID_EF=-0.1, RCVD_IN_DNSWL_MED=-2.3, SPF_HELO_PASS=-0.001, SPF_PASS=-0.001 autolearn=ham autolearn_force=no X-Spam_action: no action X-Spam-Score: -1.4 (-) X-Debbugs-Envelope-To: submit X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -2.4 (--) * gnu/packages/bioconductor.scm (r-metaneighbor): New variable. --- gnu/packages/bioconductor.scm | 36 +++++++++++++++++++++++++++++++++++ 1 file changed, 36 insertions(+) diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 39c9c6f809..c3e0548b45 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -6010,6 +6010,42 @@ (define-public r-made4 datasets (coinertia analysis).") (license license:artistic2.0))) +(define-public r-metaneighbor + (package + (name "r-metaneighbor") + (version "1.18.0") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "MetaNeighbor" version)) + (sha256 + (base32 + "1gjjp5qlmv26sd3fvrd8cgv3invckxr8ldjpizpqm4mxjzifxwpm")))) + (properties `((upstream-name . "MetaNeighbor"))) + (build-system r-build-system) + (propagated-inputs + (list r-beanplot + r-dplyr + r-ggplot2 + r-gplots + r-igraph + r-matrix + r-matrixstats + r-rcolorbrewer + r-singlecellexperiment + r-summarizedexperiment + r-tibble + r-tidyr)) + (native-inputs (list r-knitr)) + (home-page "https://bioconductor.org/packages/MetaNeighbor") + (synopsis "Single cell replicability analysis") + (description + "This package implements a method to rapidly assess cell type identity using +both functional and random gene sets and it allows users to quantify cell type +replicability across datasets using neighbor voting. @code{MetaNeighbor} works +on the basis that cells of the same type should have more similar gene expression +profiles than cells of different types.") + (license license:expat))) + (define-public r-methylkit (package (name "r-methylkit") base-commit: 3578fb1323db3f0eadd5749e51095e5f196d78c7 -- 2.38.1 From debbugs-submit-bounces@debbugs.gnu.org Thu Dec 01 05:50:54 2022 Received: (at 59672-done) by debbugs.gnu.org; 1 Dec 2022 10:50:54 +0000 Received: from localhost ([127.0.0.1]:38972 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p0h9a-0007hC-Gv for submit@debbugs.gnu.org; Thu, 01 Dec 2022 05:50:54 -0500 Received: from sender4-of-o51.zoho.com ([136.143.188.51]:21135) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p0h9X-0007h1-6Y for 59672-done@debbugs.gnu.org; Thu, 01 Dec 2022 05:50:53 -0500 ARC-Seal: i=1; a=rsa-sha256; t=1669891848; cv=none; d=zohomail.com; s=zohoarc; b=T3T9h+6XoHmpw9PP/9zd87sijNO6hV9CfdHRfjq6wM7+imuSTUFnBK6L1othHWCqr/QIuOuSXlM1Ykf7+ZgEEjK9E6us8pbxo8RKmX9YFNNB7RLucLwRPf5M9eKHS9bjicYLd7ZnbaT3tjCJrfE+9/yCnwgNd4EB9y1szlP0s8U= ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=zohomail.com; s=zohoarc; t=1669891848; h=Content-Type:Date:From:MIME-Version:Message-ID:Subject:To; bh=VG1LAp/EGbsdBwo79AT5alOgM25zAG9b1t+IIDa4dWU=; b=LGtZpjX4mbKmpT64x/Jk64ek88rjetJ3gGKJ4qnPMWjU79X1ucnunoGxkCwbwUqA5hj0d7izDya6jnMlHKa3uxpwu9oD5go+2yRk0Yc1WXGycqsC4UdAjLHLwguqzMTdePLf4so3VPtaXk2TXvdMiMrqFpYgeeVpo9upoAGbFBY= ARC-Authentication-Results: i=1; mx.zohomail.com; dkim=pass header.i=elephly.net; spf=pass smtp.mailfrom=rekado@elephly.net; dmarc=pass header.from= DKIM-Signature: v=1; a=rsa-sha256; q=dns/txt; c=relaxed/relaxed; t=1669891848; s=zoho; d=elephly.net; i=rekado@elephly.net; h=From:From:To:To:Subject:Subject:Date:Date:Message-ID:MIME-Version:Content-Type:Message-Id:Reply-To:Cc; bh=VG1LAp/EGbsdBwo79AT5alOgM25zAG9b1t+IIDa4dWU=; b=FoTnSqEk3kdJnea8vrZH5OfYkq5bcDcIUyMQGuH2f6RJ2DkEY7dfombuWD2MKWlA vSvGYHNog1RQ8BLJZfn1+TuL4NJMfW4GTi0IzqHbO8VGPHqqYr6EAuvhMwxHFQXDkci 8aWSeuVXRPLXl8iRlUYSki/bAZPnxR2CviTF+NUM= Received: from localhost (145-109-142-46.pool.kielnet.net [46.142.109.145]) by mx.zohomail.com with SMTPS id 1669891845651806.743710671242; Thu, 1 Dec 2022 02:50:45 -0800 (PST) User-agent: mu4e 1.8.9; emacs 28.1 From: Ricardo Wurmus To: 59672-done@debbugs.gnu.org Subject: [PATCH] gnu: Add r-metaneighbor. 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