From unknown Thu Sep 11 02:37:35 2025 Content-Disposition: inline Content-Transfer-Encoding: quoted-printable MIME-Version: 1.0 X-Mailer: MIME-tools 5.509 (Entity 5.509) Content-Type: text/plain; charset=utf-8 From: bug#62882 <62882@debbugs.gnu.org> To: bug#62882 <62882@debbugs.gnu.org> Subject: Status: [PATCH] gnu: Add r-demultiplex2. Reply-To: bug#62882 <62882@debbugs.gnu.org> Date: Thu, 11 Sep 2025 09:37:35 +0000 retitle 62882 [PATCH] gnu: Add r-demultiplex2. reassign 62882 guix-patches submitter 62882 Navid Afkhami severity 62882 normal tag 62882 patch thanks From debbugs-submit-bounces@debbugs.gnu.org Sun Apr 16 06:28:43 2023 Received: (at submit) by debbugs.gnu.org; 16 Apr 2023 10:28:43 +0000 Received: from localhost ([127.0.0.1]:50644 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1pnzcg-0000Gz-OS for submit@debbugs.gnu.org; Sun, 16 Apr 2023 06:28:43 -0400 Received: from lists.gnu.org ([209.51.188.17]:35252) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1pnzce-0000Gp-9W for submit@debbugs.gnu.org; Sun, 16 Apr 2023 06:28:41 -0400 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 1pnzcd-00058I-A5 for guix-patches@gnu.org; Sun, 16 Apr 2023 06:28:39 -0400 Received: from a2062.mx.srv.dfn.de ([194.95.232.172]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1pnzcb-0006GC-5c for guix-patches@gnu.org; Sun, 16 Apr 2023 06:28:39 -0400 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=1681640912; x=1683455313; bh=8AbuXko3H+bFGE6 UDBdiyVgxDgMFyDB4nKEi3dFGFIE=; b=cNhOYR6sruS79A97+BVgtgqopCYeF+p tE8hgw50oaegkzk7+5WXloJH7E++FxZFOdhsrY4YeCrayl1SKh9uytHB05diJXXG bTi6JyPsu7jFknR77R2iFVGJJD9xRoQaNw09DKqq0ifz5gZu/WsEL5Kc5DgX2Lzt Ock+mw71AT6c= Received-SPF: Pass (mailfrom) identity=mailfrom; client-ip=141.80.113.62; helo=sw-it-p-ex4.mdc-berlin.net; envelope-from=navid.afkhami@mdc-berlin.de; receiver= Received: from SW-IT-P-EX4.mdc-berlin.net (mgw4.mdc-berlin.de [141.80.113.62]) by a2062.mx.srv.dfn.de (Postfix) with ESMTPS id 14975A0146 for ; Sun, 16 Apr 2023 12:28:31 +0200 (CEST) Received: from localhost.localdomain (10.84.128.6) 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 15.1.2507.23; Sun, 16 Apr 2023 12:28:25 +0200 From: Navid Afkhami To: Subject: [PATCH] gnu: Add r-demultiplex2. Date: Sun, 16 Apr 2023 12:28:12 +0200 Message-ID: <20230416102812.60375-1-navid.afkhami@mdc-berlin.de> X-Mailer: git-send-email 2.34.1 MIME-Version: 1.0 Content-Transfer-Encoding: 8bit Content-Type: text/plain X-Originating-IP: [10.84.128.6] X-ClientProxiedBy: SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) To SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-9.0.1002-27568.007 X-TM-AS-Result: No-10--6.664100-5.000000 X-TMASE-MatchedRID: a3KJLn6RIiJ6fjezFKxXHArcxrzwsv5uwTlc9CcHMZerwqxtE531VE/O fkh/+AL49F32wWL5ioK0I4EME7lEyzraDfkFiQcMxi///JpaHQP2W3gEBC4gVPt9kl8N0Ihc+jV zof0NuiOd0PCdDanA+r7pQJMcKxQmWEYBa85jFajX3j/lf1V8LFkN0eJOT05w8XfjqINUwdOUg5 UD6AlF0sX4oKkYTfsImyiLZetSf8mfop0ytGwvXiq2rl3dzGQ1l3+bAt/YFVT/5TGR3aZAkMlFl 7eV0Onhnq8WnQlUUl+1zYa0SOiJK5RMZUCEHkRt X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--6.664100-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27568.007 X-TM-SNTS-SMTP: 1F5FC2FA1BFEB097C904B8896931156E330775E676A6F54EDFC6E2BFE7BC0A5D2002:F Received-SPF: pass client-ip=194.95.232.172; envelope-from=Navid.Afkhami@mdc-berlin.de; helo=a2062.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/bioinformatics.scm (r-demultiplex2): New variable. --- gnu/packages/bioinformatics.scm | 41 +++++++++++++++++++++++++++++++++ 1 file changed, 41 insertions(+) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index b5442dd0ad..1919866731 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -9662,6 +9662,47 @@ (define-public r-demuxmix rates can be estimated, and methods for quality control are provided.") (license license:artistic2.0)))) +(define-public r-demultiplex2 + (let ((commit "e42bc8310c0ea035af100e6ccea59b46ad6385f5") + (revision "1")) + (package + (name "r-demultiplex2") + (version (git-version "1.0.0" revision commit)) + (source (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/Gartner-Lab/deMULTIplex2") + (commit commit))) + (file-name (git-file-name name version)) + (sha256 + (base32 + "15f3kshsdvm97w24ql9b1wjlfbabimdsam0482hg7jivlvpl8j9w")))) + (properties `((upstream-name . "deMULTIplex2"))) + (build-system r-build-system) + (propagated-inputs (list r-data-table + r-devtools + r-dplyr + r-ggextra + r-ggplot2 + r-gridextra + r-magrittr + r-mass + r-matrix + r-rcolorbrewer + r-shortread + r-stringdist + r-tidyr + r-uwot + r-viridis + r-xvector)) + (home-page "https://github.com/Gartner-Lab/deMULTIplex2") + (synopsis "Robust sample demultiplexing for scRNA-seq") + (description + "Bioinformatics algorithm for demultiplexing multiplexed single cell datasets. +It is built on a statistical model of tag read counts derived from +the physical mechanism of tag cross-contamination.") + (license license:cc0)))) + (define-public r-demultiplex (let ((commit "6e2a1422c8e6f418cfb271997eebc91f9195f299") (revision "1")) -- 2.34.1 From debbugs-submit-bounces@debbugs.gnu.org Mon Apr 17 05:20:44 2023 Received: (at 62882-done) by debbugs.gnu.org; 17 Apr 2023 09:20:44 +0000 Received: from localhost ([127.0.0.1]:53210 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1poL2O-0008Sh-RL for submit@debbugs.gnu.org; Mon, 17 Apr 2023 05:20:44 -0400 Received: from sender3-of-o57.zoho.com ([136.143.184.57]:21725) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1poL2I-0008SQ-QB for 62882-done@debbugs.gnu.org; Mon, 17 Apr 2023 05:20:38 -0400 ARC-Seal: i=1; a=rsa-sha256; t=1681723233; cv=none; d=zohomail.com; s=zohoarc; b=JL6HrN5K9DJcPK0yDn0ARGwdp1EnsESVzrOv+iUD02WpekQE3EuFlQKRAc5rn9FFpjNc3Hp/6s1l5PTJJaNE1jOdfQ36y5Cmt8lQnQWq3TVEF5TgiDnoIYyB15DHwAN6I0q/md8dXZ9+vE9+EXWWIicLQWkAIy+eKEXuBZh7HkE= ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=zohomail.com; s=zohoarc; t=1681723233; h=Content-Type:Date:From:MIME-Version:Message-ID:Subject:To; bh=VG1LAp/EGbsdBwo79AT5alOgM25zAG9b1t+IIDa4dWU=; b=isVQ/BOXM4M6jMmyPGQov3ImOj9y1EN8qXmLXHBcliDonLGJlAAG2Y26o0TFDAaDRYxCYeFhQUvCM7vupJbUCr8Cgfv831FIuHOZs4wBzIm4hXkzA8dQC2OL5KXEJM0/rqq5FED79BtZvxZ19Xm8z6bhHZNcG2YH5tr9QLu/Dlk= 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=1681723233; 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=VMx1WAmOaB9XoiK3127Id6ZO44CthwWhuxwOCQRG3usqmGjggWmeRlcxM5zPll8T KbPQB1rjvc8wy4kr6u5YOW/qj7l+0g0EEfWL++0g1PitQETL5N/hxTIr0JGxj1o/NK8 bNMStfjMbTScA0d24jDf8casnKBkBrj/3JYffLl0= Received: from localhost (169-110-142-46.pool.kielnet.net [46.142.110.169]) by mx.zohomail.com with SMTPS id 1681723232773663.1715886220474; Mon, 17 Apr 2023 02:20:32 -0700 (PDT) User-agent: mu4e 1.10.2; emacs 28.2 From: Ricardo Wurmus To: 62882-done@debbugs.gnu.org Subject: gnu: Add r-demultiplex2. Date: Mon, 17 Apr 2023 11:20:11 +0200 Message-ID: <87a5z6sw4h.fsf@elephly.net> MIME-Version: 1.0 Content-Type: text/plain X-ZohoMailClient: External X-Spam-Score: -0.0 (/) X-Debbugs-Envelope-To: 62882-done 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: -1.0 (-) Applied, thanks! -- Ricardo From unknown Thu Sep 11 02:37:35 2025 Received: (at fakecontrol) by fakecontrolmessage; To: internal_control@debbugs.gnu.org From: Debbugs Internal Request Subject: Internal Control Message-Id: bug archived. Date: Mon, 15 May 2023 11:24:10 +0000 User-Agent: Fakemail v42.6.9 # This is a fake control message. # # The action: # bug archived. thanks # This fakemail brought to you by your local debbugs # administrator