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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: Mon, 05 Dec 2022 17:28:02 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 59840 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: <59840@debbugs.gnu.org> Cc: rekado@elephly.net X-Debbugs-Original-Xcc: rekado@elephly.net Received: via spool by 59840-submit@debbugs.gnu.org id=B59840.167026127130570 (code B ref 59840); Mon, 05 Dec 2022 17:28:02 +0000 Received: (at 59840) by debbugs.gnu.org; 5 Dec 2022 17:27:51 +0000 Received: from localhost ([127.0.0.1]:37354 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p2FFu-0007wz-Sz for submit@debbugs.gnu.org; Mon, 05 Dec 2022 12:27:51 -0500 Received: from a2062.mx.srv.dfn.de ([194.95.232.172]:55569) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p2FFt-0007wg-19 for 59840@debbugs.gnu.org; Mon, 05 Dec 2022 12:27:49 -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 :references:in-reply-to:x-mailer:message-id:date:date:subject :subject:from:from:received; s=mdc; t=1670261262; x=1672075663; bh=221HpKp0RMkXV/oTcAk4cwKb0dVoL5c19kL8prtrci0=; b=C/+h33hbj4iC CktGvyi6nk1QqFqf7ezFJFMe5kyzIheEjOV67DlnzwPeRCjLcR4TMEVN7tSKsN4P Y5TzQhND9wjoGYBy+xwVBAudVzUfrymcs/PY/wdzU58AkHUaWDPNdDZSvzkceF7h mbstx2NxG0Frt382WIT2XMONfkyYj8s= 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 E2A6CA0A95 for <59840@debbugs.gnu.org>; Mon, 5 Dec 2022 18:27:42 +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; Mon, 5 Dec 2022 18:27:40 +0100 From: =?utf-8?b?TcSDZMSDbGlu?= Ionel =?utf-8?b?UGF0cmHImWN1?= Date: Mon, 5 Dec 2022 18:27:26 +0100 Message-ID: <20221205172726.24426-3-madalinionel.patrascu@mdc-berlin.de> X-Mailer: git-send-email 2.38.1 In-Reply-To: <20221205172726.24426-1-madalinionel.patrascu@mdc-berlin.de> References: <20221205172726.24426-1-madalinionel.patrascu@mdc-berlin.de> 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-14.0.0.3092-9.0.1002-27306.001 X-TM-AS-Result: No-10--7.202300-5.000000 X-TMASE-MatchedRID: 4RK2gbhxGJP/R1NSMc2qCU7nLUqYrlslFIuBIWrdOeOjEIt+uIPPOAbo TDS3zulAcjTcMkuJPYkZijt1cgK90C/33TWoSUH6194/5X9VfCy5yK79j3pvlA5SzgJNSArLAQP +5JV1VlpyvWES1H1EtZ8sZoiSTmprXbwYQAJ0CYrdCok3ibXlQeuLFZZYlisfHxPMjOKY7A9qHX ONfTwSQsRB0bsfrpPIXzYxeQR1DvvlHWmTu8F+Mw4UmgER2XhqgThDrRNNCrg/2j/NVlWJAtYxF AbKgQ7V X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--7.202300-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27306.001 X-TM-SNTS-SMTP: 463FD1DD4374EE1EAA8BAD8884559647BFC7EB70084CA266334D6C3A9A4C78CA2002: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-bounces+patchwork=mira.cbaines.net@gnu.org X-getmail-retrieved-from-mailbox: Patches * gnu/packages/bioconductor.scm (r-amplican): 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 c62c5970b8..7e92186505 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -2178,6 +2178,52 @@ (define-public r-airpart datasets.") (license license:gpl2))) +(define-public r-amplican + (package + (name "r-amplican") + (version "1.20.0") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "amplican" version)) + (sha256 + (base32 + "1c990i6gxbarcpbdpkz017x94spwzap95l95synlizbkyif4z8ij")))) + (properties `((upstream-name . "amplican"))) + (build-system r-build-system) + (propagated-inputs + (list r-biocgenerics + r-biocparallel + r-biostrings + r-clustercrit + r-data-table + r-dplyr + r-genomeinfodb + r-genomicranges + r-ggplot2 + r-ggthemes + r-gridextra + r-gtable + r-iranges + r-knitr + r-matrix + r-matrixstats + r-rcpp + r-rmarkdown + r-s4vectors + r-shortread + r-stringr + r-waffle)) + (native-inputs (list r-knitr)) + (home-page "https://github.com/valenlab/amplican") + (synopsis "Automated analysis of CRISPR experiments") + (description + "The package performs alignment of the amplicon reads, normalizes gathered +data, calculates multiple statistics (e.g. cut rates, frameshifts) and presents +the results in the form of aggregated reports. Data and statistics can be broken +down by experiments, barcodes, user defined groups, guides and amplicons allowing +for quick identification of potential problems.") + (license license:gpl3))) + (define-public r-amountain (package (name "r-amountain")