From unknown Fri Jun 20 07:23:37 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#55240 <55240@debbugs.gnu.org> To: bug#55240 <55240@debbugs.gnu.org> Subject: Status: [PATCH 4/4] gnu: Add r-airpart. Reply-To: bug#55240 <55240@debbugs.gnu.org> Date: Fri, 20 Jun 2025 14:23:37 +0000 retitle 55240 [PATCH 4/4] gnu: Add r-airpart. reassign 55240 guix-patches submitter 55240 M=C4=83d=C4=83lin Ionel Patra=C8=99cu severity 55240 normal tag 55240 patch thanks From debbugs-submit-bounces@debbugs.gnu.org Tue May 03 02:53:34 2022 Received: (at submit) by debbugs.gnu.org; 3 May 2022 06:53:34 +0000 Received: from localhost ([127.0.0.1]:38538 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1nlmPe-00060N-8C for submit@debbugs.gnu.org; Tue, 03 May 2022 02:53:34 -0400 Received: from lists.gnu.org ([209.51.188.17]:45512) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1nlmPc-00060A-Ae for submit@debbugs.gnu.org; Tue, 03 May 2022 02:53:32 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]:47874) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1nlmPa-0008NR-NX for guix-patches@gnu.org; Tue, 03 May 2022 02:53:32 -0400 Received: from c2062.mx.srv.dfn.de ([194.95.238.172]:34827) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1nlmPY-0006f5-H4 for guix-patches@gnu.org; Tue, 03 May 2022 02:53:30 -0400 Received: from localhost (localhost [127.0.0.1]) by c2062.mx.srv.dfn.de (Postfix) with ESMTP id 0512230016F for ; Tue, 3 May 2022 08:53:27 +0200 (CEST) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/simple; d=mdc-berlin.de; h= content-type:content-type:content-transfer-encoding:mime-version :references:in-reply-to:x-mailer:message-id:date:date:subject :subject:from:from:received:received:received; s=mdc; t= 1651560806; x=1653375207; bh=aQXndCf+BGWLviJTtTxR3OWBgtg3KivRti5 +H6NT7rQ=; b=Vknc0lWYB1x3UPqMlwx4pqb9x4i8Ga/LHOHNEcWxBwxLDT/Z9an RM+bnsA7i9abzH2ZWqIOTU2k/hErpCcE46xZTLbLeSF7TKDdggh1NF2B/MqPKHgp RgIJ5AFdbYvKAZ52KqF44GOklvE+en54hHEipqp0tT2W1UWyr++fl730= 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 ePbJIaFecFot for ; Tue, 3 May 2022 08:53:26 +0200 (CEST) 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 ; Tue, 3 May 2022 08:53:26 +0200 (CEST) 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 15.1.2507.6; Tue, 3 May 2022 08:53:24 +0200 From: =?UTF-8?q?M=C4=83d=C4=83lin=20Ionel=20Patra=C8=99cu?= To: Subject: [PATCH 4/4] gnu: Add r-airpart. Date: Tue, 3 May 2022 08:53:11 +0200 Message-ID: <20220503065311.9192-4-madalinionel.patrascu@mdc-berlin.de> X-Mailer: git-send-email 2.36.0 In-Reply-To: <20220503065311.9192-1-madalinionel.patrascu@mdc-berlin.de> References: <20220503065311.9192-1-madalinionel.patrascu@mdc-berlin.de> MIME-Version: 1.0 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-14.0.0.3092-9.0.1002-26870.006 X-TM-AS-Result: No-10--2.162000-5.000000 X-TMASE-MatchedRID: JUGAxiLh1cP/R1NSMc2qCU7nLUqYrlslFIuBIWrdOeOjEIt+uIPPOAbo TDS3zulAcjTcMkuJPYkZijt1cgK90C/33TWoSUH6194/5X9VfCznrllatbeJEDhqOHSHQAkg4s8 u+Zeh+al9LQinZ4QefPcjNeVeWlqY+gtHj7OwNO22utO5qEfOUYhwCFkZl4Fwmxqpm/vO1GJD23 xx9AzFUDH1kpEXG3EJgx0fG+CluLsE9df5fg+EonPxdghPUWXVdtIwGTuDzk5Cu3LG9HAobXQJ8 8ZHP8DjvmJf6uotZp79ZjtYmCyQ6k+HGwSCjLh6vuvB6gAgryg= X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--2.162000-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-26870.006 X-TM-SNTS-SMTP: 47F55C10060E0ECE3E477175D215F623228C66EAEF56F3D948AE03C4D012A7642002: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, T_SCC_BODY_TEXT_LINE=-0.01 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-airpart): New variable. --- gnu/packages/bioconductor.scm | 46 +++++++++++++++++++++++++++++++++++ 1 file changed, 46 insertions(+) diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index a78903becc..2967c5016b 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -1877,6 +1877,52 @@ (define-public r-agilp ;; GPLv3. (license license:gpl3))) +(define-public r-airpart + (package + (name "r-airpart") + (version "1.4.0") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "airpart" version)) + (sha256 + (base32 + "0ljankgvgf8rby4z340wxx8v7acs9yz955p3a40jl6y8rz1svc06")))) + (properties `((upstream-name . "airpart"))) + (build-system r-build-system) + (propagated-inputs + (list r-apeglm + r-clue + r-complexheatmap + r-dplyr + r-dynamictreecut + r-emdbook + r-forestplot + r-ggplot2 + r-lpsolve + r-matrixstats + r-mclust + r-pbapply + r-plyr + r-rcolorbrewer + r-rlang + r-s4vectors + r-scater + r-singlecellexperiment + r-smurf + r-summarizedexperiment)) + (native-inputs (list r-knitr)) + (home-page "https://bioconductor.org/packages/airpart") + (synopsis "Differential cell-type-specific allelic imbalance") + (description + "The @code{airpart} package identifies sets of genes displaying differential +cell-type-specific allelic imbalance across cell types or states, utilizing +single-cell allelic counts. It makes use of a generalized fused lasso with +binomial observations of allelic counts to partition cell types by their allelic +imbalance. Alternatively, a nonparametric method for partitioning cell types +is offered. The package includes a number of visualizations and quality control +functions for examining single cell allelic imbalance datasets.") + (license license:gpl2))) + (define-public r-aneufinder (package (name "r-aneufinder") -- 2.36.0 From debbugs-submit-bounces@debbugs.gnu.org Tue May 03 03:34:12 2022 Received: (at control) by debbugs.gnu.org; 3 May 2022 07:34:13 +0000 Received: from localhost ([127.0.0.1]:38589 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1nln2y-00070k-OR for submit@debbugs.gnu.org; Tue, 03 May 2022 03:34:12 -0400 Received: from a2062.mx.srv.dfn.de ([194.95.232.172]:56055) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1nln2w-00070V-Pj for control@debbugs.gnu.org; Tue, 03 May 2022 03:34:11 -0400 Received: from localhost (localhost [127.0.0.1]) by a2062.mx.srv.dfn.de (Postfix) with ESMTP id 3812FA0144 for ; Tue, 3 May 2022 09:34:04 +0200 (CEST) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/simple; d=mdc-berlin.de; h= mime-version:content-type:content-type:content-language :accept-language:message-id:date:date:subject:subject:from:from :received:received:received:received; s=mdc; t=1651563243; x= 1653377644; bh=3mgtG6M//V2KJdngmuzrXoMzUt23EqPk7TOabgIF3jc=; b=Z wYO2RA4vfGVfnOK2bsB1SstDkTJXkTVMnSShIif0OdUQDPGTLuyBA6LEcRodo/cZ 1KSGdEiu5WZNiZgfSphd+kS3e/V6/c6vr+j9aZ6MQqp/Lz0eOaTL7U8N21cenxJJ lqC9junE4n/wbXFBNzHhT2wuImjGSOSRzKUBRgz8qA= Received: from a2062.mx.srv.dfn.de ([127.0.0.1]) by localhost (mgw4-han.srv.dfn.de [127.0.0.1]) (amavisd-new, port 20134) with ESMTP id 2px8ZU4pnDsg for ; Tue, 3 May 2022 09:34:03 +0200 (CEST) Received: from SW-IT-P-EX3.mdc-berlin.net (mgw3.mdc-berlin.de [141.80.113.61]) by a2062.mx.srv.dfn.de (Postfix) with ESMTPS for ; Tue, 3 May 2022 09:34:03 +0200 (CEST) Received: from SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) by SW-IT-P-EX3.mdc-berlin.net (141.80.113.61) with Microsoft SMTP Server (version=TLS1_2, cipher=TLS_ECDHE_RSA_WITH_AES_256_GCM_SHA384) id 15.1.2507.6; Tue, 3 May 2022 09:34:02 +0200 Received: from SW-IT-P-EX4.mdc-berlin.net ([fe80::e55f:895f:3b41:ec6a]) by SW-IT-P-EX4.mdc-berlin.net ([fe80::e55f:895f:3b41:ec6a%2]) with mapi id 15.01.2507.006; Tue, 3 May 2022 09:34:02 +0200 From: "MadalinIonel.Patrascu@mdc-berlin.de" To: "control@debbugs.gnu.org" Subject: Thread-Index: AQHYXsAieD77yHhtRE2R5LmwA1ZMfQ== Date: Tue, 3 May 2022 07:34:02 +0000 Message-ID: Accept-Language: en-US, de-DE Content-Language: en-US X-MS-Has-Attach: X-MS-TNEF-Correlator: x-originating-ip: [141.80.113.52] x-tm-as-product-ver: SMEX-14.0.0.3092-9.0.1002-26870.006 x-tm-as-result: No-10--7.341800-5.000000 x-tmase-matchedrid: /wpIrmKs80o25XOhnouJ5RuurbgYp+HQCCo+lsDuynVL/3rQmWrTBjgo 8pDHL4T+2jLjTN2/0fpT0gFhwwXJ3aaDx0F8sKdXYrc32n84WHq87rU89eLPKdH5gcDnBDmDMK4 UhQv3SRj4BkpzzzwsrZVrrQyBZ96QgbgOcLxbGcL/McoAQhls9IfnRpAkTxUolwV2iaAfSWf4cK Zpr+0wdlsKO+9Zlb5JmlmcjfJPlsk46Sly2Ayi9cB5WbWedZl0sTOtFJOIkxoYbQJP95k+uLP5K p5ouscpZUiulHUWTZvQLzmCcDSYNQ== x-tm-as-user-approved-sender: Yes x-tm-as-user-blocked-sender: No x-tmase-result: 10--7.341800-5.000000 x-tmase-version: SMEX-14.0.0.3092-9.0.1002-26870.006 x-tm-snts-smtp: 4354ACE32C54AA6A52947F9EE2D70DD0113A9A798D10F4E448567926893E435A2002:F Content-Type: multipart/alternative; boundary="_000_f3718a5c6cc249e6a684efc4e61e9833mdcberlinde_" MIME-Version: 1.0 X-Spam-Score: -0.3 (/) X-Debbugs-Envelope-To: control 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: -1.3 (-) --_000_f3718a5c6cc249e6a684efc4e61e9833mdcberlinde_ Content-Type: text/plain; charset="iso-8859-1" Content-Transfer-Encoding: quoted-printable merge 55237 55239 55238 55241 55240 thanks --_000_f3718a5c6cc249e6a684efc4e61e9833mdcberlinde_ Content-Type: text/html; charset="iso-8859-1" Content-Transfer-Encoding: quoted-printable

merge 55237 55239 55238 55241 55240

thanks

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