@@ -0,0 +1,2618 @@
+##############################################################################%0A# Copyright (c) 2013-2017, Lawrence Livermore National Security, LLC.%0A# Produced at the Lawrence Livermore National Laboratory.%0A#%0A# This file is part of Spack.%0A# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.%0A# LLNL-CODE-647188%0A#%0A# For details, see https://github.com/llnl/spack%0A# Please also see the NOTICE and LICENSE files for our notice and the LGPL.%0A#%0A# This program is free software; you can redistribute it and/or modify%0A# it under the terms of the GNU Lesser General Public License (as%0A# published by the Free Software Foundation) version 2.1, February 1999.%0A#%0A# This program is distributed in the hope that it will be useful, but%0A# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF%0A# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and%0A# conditions of the GNU Lesser General Public License for more details.%0A#%0A# You should have received a copy of the GNU Lesser General Public%0A# License along with this program; if not, write to the Free Software%0A# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA%0A##############################################################################%0Afrom spack import *%0A%0A%0Aclass RAbaenrichment(RPackage):%0A    %22%22%22The package ABAEnrichment is designed to test for enrichment%0A    of user defined candidate genes in the set of expressed genes in%0A    different human brain regions. The core function 'aba_enrich'%0A    integrates the expression of the candidate gene set (averaged%0A    across donors) and the structural information of the brain using%0A    an ontology, both provided by the Allen Brain Atlas project.%0A    'aba_enrich' interfaces the ontology enrichment software FUNC to%0A    perform the statistical analyses. Additional functions provided%0A    in this package like 'get_expression' and 'plot_expression'%0A    facilitate exploring the expression data. From version 1.3.5%0A    onwards genomic regions can be provided as input, too; and from%0A    version 1.5.9 onwards the function 'get_annotated_genes' offers%0A    an easy way to obtain annotations of genes to enriched or%0A    user-defined brain regions.%22%22%22%0A%0A    homepage = %22https://bioconductor.org/packages/ABAEnrichment/%22%0A    url      = %22https://bioconductor.org/packages/release/bioc/src/contrib/ABAEnrichment_1.6.0.tar.gz%22%0A%0A    version('1.6.0', '810eb4ee9ce2a5049babbb174dc8d588')%0A%0A    depends_on('r-rcpp', type=('build', 'run'))%0A    depends_on('r-gplots', type=('build', 'run'))%0A    depends_on('r-gtools', type=('build', 'run'))%0A    depends_on('r-abadata', type=('build', 'run'))%0A

Create new package. (#5612)