From mboxrd@z Thu Jan 1 00:00:00 1970 From: Ricardo Wurmus Subject: [PATCH 14/18] gnu: Add r-seqgl. Date: Thu, 24 Nov 2016 17:51:35 +0100 Message-ID: <20161124165139.13740-15-rekado@elephly.net> References: <20161124165139.13740-1-rekado@elephly.net> Return-path: Received: from eggs.gnu.org ([2001:4830:134:3::10]:44028) by lists.gnu.org with esmtp (Exim 4.71) (envelope-from ) id 1c9xGQ-00065t-4o for guix-devel@gnu.org; Thu, 24 Nov 2016 11:52:47 -0500 Received: from Debian-exim by eggs.gnu.org with spam-scanned (Exim 4.71) (envelope-from ) id 1c9xGP-0002oO-70 for guix-devel@gnu.org; Thu, 24 Nov 2016 11:52:46 -0500 Received: from sender163-mail.zoho.com ([74.201.84.163]:21331) by eggs.gnu.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32) (Exim 4.71) (envelope-from ) id 1c9xGO-0002mW-Vs for guix-devel@gnu.org; Thu, 24 Nov 2016 11:52:45 -0500 In-Reply-To: <20161124165139.13740-1-rekado@elephly.net> List-Id: "Development of GNU Guix and the GNU System distribution." List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: guix-devel-bounces+gcggd-guix-devel=m.gmane.org@gnu.org Sender: "Guix-devel" To: guix-devel@gnu.org * gnu/packages/bioinformatics.scm (r-seqgl): New variable. --- gnu/packages/bioinformatics.scm | 30 ++++++++++++++++++++++++++++++ 1 file changed, 30 insertions(+) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 98dad40..89a9db1 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -7521,6 +7521,36 @@ must be built and this dictionary can be used for determining kernels for DNA Sequences.") (license license:gpl2+)))) +(define-public r-seqgl + (package + (name "r-seqgl") + (version "1.1.4") + (source + (origin + (method url-fetch) + (uri (string-append "https://github.com/ManuSetty/SeqGL/" + "archive/" version ".tar.gz")) + (file-name (string-append name "-" version ".tar.gz")) + (sha256 + (base32 + "0pnk1p3sci5yipyc8xnb6jbmydpl80fld927xgnbcv104hy8h8yh")))) + (build-system r-build-system) + (propagated-inputs + `(("r-biostrings" ,r-biostrings) + ("r-chipkernels" ,r-chipkernels) + ("r-genomicranges" ,r-genomicranges) + ("r-spams" ,r-spams) + ("r-wgcna" ,r-wgcna) + ("r-fastcluster" ,r-fastcluster))) + (home-page "https://github.com/ManuSetty/SeqGL") + (synopsis "Group lasso for Dnase/ChIP-seq data") + (description "SeqGL is a group lasso based algorithm to extract +transcription factor sequence signals from ChIP, DNase and ATAC-seq profiles. +This package presents a method which uses group lasso to discriminate between +bound and non bound genomic regions to accurately identify transcription +factors bound at the specific regions.") + (license license:gpl2+))) + (define-public emboss (package (name "emboss") -- 2.10.2