From patchwork Tue Mar 8 19:06:17 2022 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: Simon Tournier X-Patchwork-Id: 37685 Return-Path: X-Original-To: patchwork@mira.cbaines.net Delivered-To: patchwork@mira.cbaines.net Received: by mira.cbaines.net (Postfix, from userid 113) id F14DC27BBEA; Tue, 8 Mar 2022 19:07:13 +0000 (GMT) X-Spam-Checker-Version: SpamAssassin 3.4.6 (2021-04-09) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-3.7 required=5.0 tests=BAYES_00,DKIM_ADSP_CUSTOM_MED, DKIM_INVALID,DKIM_SIGNED,FREEMAIL_FROM,MAILING_LIST_MULTI, RCVD_IN_MSPIKE_H5,RCVD_IN_MSPIKE_WL,SPF_HELO_PASS autolearn=unavailable autolearn_force=no version=3.4.6 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) by mira.cbaines.net (Postfix) with ESMTPS id 87C2027BBE9 for ; Tue, 8 Mar 2022 19:07:13 +0000 (GMT) Received: from localhost ([::1]:51116 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1nRfAu-000437-Mh for patchwork@mira.cbaines.net; Tue, 08 Mar 2022 14:07:12 -0500 Received: from eggs.gnu.org ([209.51.188.92]:49228) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1nRfAm-000421-8Y for guix-patches@gnu.org; Tue, 08 Mar 2022 14:07:04 -0500 Received: from debbugs.gnu.org ([209.51.188.43]:35813) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1nRfAl-0002cA-W7 for guix-patches@gnu.org; Tue, 08 Mar 2022 14:07:04 -0500 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1nRfAl-0003z6-Qx for guix-patches@gnu.org; Tue, 08 Mar 2022 14:07:03 -0500 X-Loop: help-debbugs@gnu.org Subject: [bug#54303] [PATCH 6/6] gnu: Add r-diffcyt. Resent-From: zimoun Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Tue, 08 Mar 2022 19:07:03 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 54303 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 54303@debbugs.gnu.org Cc: zimoun Received: via spool by 54303-submit@debbugs.gnu.org id=B54303.164676640315248 (code B ref 54303); Tue, 08 Mar 2022 19:07:03 +0000 Received: (at 54303) by debbugs.gnu.org; 8 Mar 2022 19:06:43 +0000 Received: from localhost ([127.0.0.1]:57938 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1nRfAQ-0003xl-Ud for submit@debbugs.gnu.org; Tue, 08 Mar 2022 14:06:43 -0500 Received: from mail-wr1-f51.google.com ([209.85.221.51]:33601) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1nRfAL-0003wY-KW for 54303@debbugs.gnu.org; Tue, 08 Mar 2022 14:06:38 -0500 Received: by mail-wr1-f51.google.com with SMTP id j17so30151283wrc.0 for <54303@debbugs.gnu.org>; Tue, 08 Mar 2022 11:06:37 -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=wYD17jhXYq95nUtbjgYTrXjB9EsH4AO3i99Rku39Qyo=; b=bPuRGBYdrfEa9MNe87FD01DMitjyjPeAp1szF9FjK3B2LAsbP8iLeWPcowFtKj5OHK vCLuIEIovIwYieI/uZRd+bUpbimqbV0McbRsWsM7Mwrk9Zpk3hz32FnQpBzCrVobk+Fo y0mxZLA57zNKArHRPp4uOVTzikSaAbBdT0Z8m3syE28LrUXjzSBVdTL8ufCe7Rop6Mf+ zVqDhTYTwQXHflflRxUl7orJiPsnahO8abfWu5pAG0BlJcMa5I1bQjp5lkSGTDCiolWb PTrfJHhFt0mU5+ST3l+1wcvJmBefqgQ3jWjazTwLXKwVU2HXRISw6l4LIEa3lywKdF+7 +taQ== 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=wYD17jhXYq95nUtbjgYTrXjB9EsH4AO3i99Rku39Qyo=; b=BGRa1QA0RXcjyAt3vz0VSfECOIc8o5YTG87P+q6Sg7q+qD0KaXDQhcFsEd8DGGora4 k5YxuF6TbVHZzrucmwwiatyoGD4vpD5yMCfvNlkfOpX+j7Vz5K3pWlTavMC0PzORWwpY h9zG3Urm/yVCLN0/ACDTa8msyWW+Nbd163pzNRDpVpDB51CVhxfflPj3Drf29AV1LD2g hdxLNDr/6R8+OmJnM7cGq7KWlhYm8QUvPL3uw5HMzqsXG5EnciDt43T2Mfcwnwt5Jn/M Pc/SSTGTtesmvBpgiL6HLWCq/ooFyaXEYxXZPvm8n4RLJjs5cjVGPBaJr+FdUb1QcceK aW+A== X-Gm-Message-State: AOAM53165RLBoedTZnsu/kNa6Y46U+X+elwv3qzHTKxGiigaScQ0jVxa QdtN4dCQZ8xLgsaRBytrNaHIqhtpCeo= X-Google-Smtp-Source: ABdhPJwhs5oNWcLrEMIwUV0bVhHAYWGRIUkhKDrjiKpeIDrnmJlqe4gjd1XpH7FFjA6dx1ZDCnfDHg== X-Received: by 2002:a05:6000:170d:b0:1f1:fefa:db85 with SMTP id n13-20020a056000170d00b001f1fefadb85mr7193378wrc.148.1646766392036; Tue, 08 Mar 2022 11:06:32 -0800 (PST) Received: from localhost.localdomain ([193.48.40.241]) by smtp.gmail.com with ESMTPSA id m34-20020a05600c3b2200b00380e3225af9sm3335969wms.0.2022.03.08.11.06.31 (version=TLS1_3 cipher=TLS_AES_256_GCM_SHA384 bits=256/256); Tue, 08 Mar 2022 11:06:31 -0800 (PST) From: zimoun Date: Tue, 8 Mar 2022 20:06:17 +0100 Message-Id: <20220308190617.1011563-6-zimon.toutoune@gmail.com> X-Mailer: git-send-email 2.34.0 In-Reply-To: <20220308190617.1011563-1-zimon.toutoune@gmail.com> References: <20220308190617.1011563-1-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-diffcyt): New variable. --- gnu/packages/bioconductor.scm | 38 +++++++++++++++++++++++++++++++++++ 1 file changed, 38 insertions(+) diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 8fcd43f27f..6c5de0542c 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -2966,6 +2966,44 @@ (define-public r-dexseq exploration of the results.") (license license:gpl3+))) +(define-public r-diffcyt + (package + (name "r-diffcyt") + (version "1.14.0") + (source + (origin + (method url-fetch) + (uri (bioconductor-uri "diffcyt" version)) + (sha256 + (base32 "1yc9mlc0ifb7h6rzskq97bsdq1kwdp5qq9l9mciwyxf6yjkmv5ni")))) + (properties `((upstream-name . "diffcyt"))) + (build-system r-build-system) + (propagated-inputs + (list r-circlize + r-complexheatmap + r-dplyr + r-edger + r-flowcore + r-flowsom + r-limma + r-lme4 + r-magrittr + r-multcomp + r-reshape2 + r-s4vectors + r-summarizedexperiment + r-tidyr)) + (native-inputs (list r-knitr)) + (home-page "https://github.com/lmweber/diffcyt") + (synopsis "Differential discovery in high-dimensional cytometry") + (description + "Statistical methods for differential discovery analyses in +high-dimensional cytometry data (including flow cytometry, mass cytometry or +CyTOF, and oligonucleotide-tagged cytometry), based on a combination of +high-resolution clustering and empirical Bayes moderated tests adapted from +transcriptomics.") + (license license:expat))) + (define-public r-dirichletmultinomial (package (name "r-dirichletmultinomial")