From patchwork Fri May 27 16:40:12 2022 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: =?utf-8?b?TcSDZMSDbGluIElvbmVsIFBhdHJhyJljdQ==?= X-Patchwork-Id: 39633 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 5EEB927BBEB; Fri, 27 May 2022 17:46:19 +0100 (BST) X-Spam-Checker-Version: SpamAssassin 3.4.6 (2021-04-09) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-2.7 required=5.0 tests=BAYES_00,DKIM_INVALID, DKIM_SIGNED,MAILING_LIST_MULTI,SPF_HELO_PASS,URIBL_BLOCKED autolearn=ham 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 1CA5A27BBEA for ; Fri, 27 May 2022 17:46:19 +0100 (BST) Received: from localhost ([::1]:37464 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1nud6Q-0008L1-AE for patchwork@mira.cbaines.net; Fri, 27 May 2022 12:46:18 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]:51350) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1nud1K-0002xu-JD for guix-patches@gnu.org; Fri, 27 May 2022 12:41:04 -0400 Received: from debbugs.gnu.org ([209.51.188.43]:41794) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1nud1K-0004Oe-Ae for guix-patches@gnu.org; Fri, 27 May 2022 12:41:02 -0400 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1nud1K-0001sC-8M; Fri, 27 May 2022 12:41:02 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#55679] [PATCH 1/2] gnu: Add r-googlevis. References: <7c12946df28042ceb9b9a3b266551f55@mdc-berlin.de> In-Reply-To: <7c12946df28042ceb9b9a3b266551f55@mdc-berlin.de> Resent-From: =?utf-8?b?TcSDZMSDbGlu?= Ionel =?utf-8?b?UGF0cmHImWN1?= Original-Sender: "Debbugs-submit" Resent-CC: rekado@elephly.net, guix-patches@gnu.org Resent-Date: Fri, 27 May 2022 16:41:02 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 55679 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: To: <55679@debbugs.gnu.org> Cc: rekado@elephly.net X-Debbugs-Original-Xcc: rekado@elephly.net Received: via spool by 55679-submit@debbugs.gnu.org id=B55679.16536696517167 (code B ref 55679); Fri, 27 May 2022 16:41:02 +0000 Received: (at 55679) by debbugs.gnu.org; 27 May 2022 16:40:51 +0000 Received: from localhost ([127.0.0.1]:35689 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1nud18-0001rX-Ke for submit@debbugs.gnu.org; Fri, 27 May 2022 12:40:50 -0400 Received: from c2062.mx.srv.dfn.de ([194.95.238.172]:35179) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1nud10-0001qt-Tz for 55679@debbugs.gnu.org; Fri, 27 May 2022 12:40:46 -0400 Received: from localhost (localhost [127.0.0.1]) by c2062.mx.srv.dfn.de (Postfix) with ESMTP id 1887F300269 for <55679@debbugs.gnu.org>; Fri, 27 May 2022 18:40:37 +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 :x-mailer:message-id:date:date:subject:subject:from:from :received:received:received; s=mdc; t=1653669636; x=1655484037; bh=37Wt+mtviciiXrzsl/eej23RGfumyHHBvbGc+vA0gBI=; b=OFwYjY4AsGMq 9Fmn0naeuNrgCIfhjtrbiF4+5YO6V1oGWKr0nn77ww3okpeVq7f/q17fyOqvz5co jPLr4azAyalwLsvqmM9Z9Fe9w8WTxz0fuXUzw1cnkJkpp0UbB0hTl8MTrKowy5ph QVuCvvMkzQg/UH7LLpBnCRw5bXFmEik= 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 KploVbqeDoUU for <55679@debbugs.gnu.org>; Fri, 27 May 2022 18:40:36 +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 <55679@debbugs.gnu.org>; Fri, 27 May 2022 18:40:36 +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 15.1.2507.9; Fri, 27 May 2022 18:40:34 +0200 From: =?utf-8?b?TcSDZMSDbGlu?= Ionel =?utf-8?b?UGF0cmHImWN1?= Date: Fri, 27 May 2022 18:40:12 +0200 Message-ID: <20220527164013.4195-1-madalinionel.patrascu@mdc-berlin.de> X-Mailer: git-send-email 2.36.0 MIME-Version: 1.0 X-Originating-IP: [141.80.113.106] 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-14.0.0.3092-9.0.1002-26920.000 X-TM-AS-Result: No-10--2.680100-5.000000 X-TMASE-MatchedRID: HRm6Pbbemxf/R1NSMc2qCU7nLUqYrlslFIuBIWrdOeOjEIt+uIPPOJGH Z85Onc+2epwUk+McqywIQXjSSArXPjWs2YGWPbxra87CDXaKRVJITEcvqjcF4EJZ5MDd4/kUY2i R7K8WcswpxlyynYQTh1eAeialF46jKWnfuF50+lqOjIrMSa2sR45A6wTicMJ00/tWY/sOuvp/FC bB39F/c4axlfSrcWmI6EBlBcRddm7Q3sOMB3Fk1OLzNWBegCW29sZ0UX0EaOILbigRnpKlKcCe2 6BkR9xPKIzdZS3ou0VRarAOvuPqdOrKsvgd6vOeV9Vx1FFFR+giRvUDQzwN8OeJclna/yYe/SYK 60OnDCgL2L7WUDsZhrr59hI+ATNmtd/LplBMt7FZKCalsVmcQjWQPYq1JOarY9u3lK2/Yrn87HR NT0KLkg== X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--2.680100-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-26920.000 X-TM-SNTS-SMTP: C69A1BF28CC8D2F827131211962A6821C7703880F3F52FACF60245BA20010F552002: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/cran.scm (r-googlevis): New variable. --- gnu/packages/cran.scm | 27 +++++++++++++++++++++++++++ 1 file changed, 27 insertions(+) base-commit: 0e953f3332cc862b08ecb2342bdac9976dd6d08c diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index 0fdcfb3cb9..ae90e5f162 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -402,6 +402,33 @@ (define-public r-googledrive (description "This package lets you manage Google Drive files from R.") (license license:expat))) +(define-public r-googlevis + (package + (name "r-googlevis") + (version "0.7.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "googleVis" version)) + (sha256 + (base32 "1s82xcs6zrlmnhay764bspzwvabfyi35nq6fwdrrk3v79q13c5jz")))) + (properties `((upstream-name . "googleVis"))) + (build-system r-build-system) + (propagated-inputs (list r-jsonlite)) + (native-inputs (list r-knitr)) + (home-page "https://mages.github.io/googleVis/") + (synopsis "R interface to Google Charts") + (description + "The @code{googleVis} package provides an interface between R and the +Google Charts API. Google Charts offer interactive charts which can be embedded +into web pages. The functions of the @code{googleVis} package allow the user to +visualise data stored in @code{R} data frames with Google Charts without +uploading the data to Google. The output of a @code{googleVis} function is +@code{HTML} code that contains the data and references to JavaScript functions +hosted by Google. @code{googleVis} makes use of the internal @code{R} +@code{HTTP server} to display the output locally.") + (license license:gpl2+))) + (define-public r-guix-install (package (name "r-guix-install") From patchwork Fri May 27 16:40:13 2022 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: =?utf-8?b?TcSDZMSDbGluIElvbmVsIFBhdHJhyJljdQ==?= X-Patchwork-Id: 39632 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 5938E27BBEA; Fri, 27 May 2022 17:41:34 +0100 (BST) X-Spam-Checker-Version: SpamAssassin 3.4.6 (2021-04-09) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-2.7 required=5.0 tests=BAYES_00,DKIM_INVALID, DKIM_SIGNED,MAILING_LIST_MULTI,SPF_HELO_PASS,URIBL_BLOCKED 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 2154D27BBE9 for ; Fri, 27 May 2022 17:41:34 +0100 (BST) Received: from localhost ([::1]:58216 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1nud1p-0002yl-7m for patchwork@mira.cbaines.net; Fri, 27 May 2022 12:41:33 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]:51344) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1nud1K-0002xZ-9m for guix-patches@gnu.org; Fri, 27 May 2022 12:41:02 -0400 Received: from debbugs.gnu.org ([209.51.188.43]:41792) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1nud1K-0004OZ-05 for guix-patches@gnu.org; Fri, 27 May 2022 12:41:02 -0400 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1nud1J-0001s5-SP for guix-patches@gnu.org; Fri, 27 May 2022 12:41:01 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#55679] [PATCH 2/2] gnu: Add r-scmap. 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(license license:gpl3))) +(define-public r-scmap + (package + (name "r-scmap") + (version "1.18.0") + (source + (origin + (method url-fetch) + (uri (bioconductor-uri "scmap" version)) + (sha256 + (base32 "0pfwaa9pgml11b84rpf7afdkmg8kxb4srgpc56571vaz388xrv7l")))) + (properties `((upstream-name . "scmap"))) + (build-system r-build-system) + (propagated-inputs + (list r-biobase + r-biocgenerics + r-dplyr + r-e1071 + r-ggplot2 + r-googlevis + r-matrixstats + r-proxy + r-randomforest + r-rcpp + r-rcpparmadillo + r-reshape2 + r-s4vectors + r-singlecellexperiment + r-summarizedexperiment)) + (native-inputs (list r-knitr)) + (home-page "https://github.com/hemberg-lab/scmap") + (synopsis "Tool for unsupervised projection of single cell RNA-seq data") + (description + "@dfn{Single-cell RNA-seq} (scRNA-seq) is widely used to investigate the +composition of complex tissues since the technology allows researchers to define +cell-types using unsupervised clustering of the transcriptome. However, due to +differences in experimental methods and computational analyses, it is often +challenging to directly compare the cells identified in two different experiments. +@code{scmap} is a method for projecting cells from a scRNA-seq experiment onto +the cell-types or individual cells identified in a different experiment.") + (license license:gpl3))) + (define-public r-seqlogo (package (name "r-seqlogo")