44 lines
2.2 KiB
Python
44 lines
2.2 KiB
Python
# Copyright 2013-2020 Lawrence Livermore National Security, LLC and other
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# Spack Project Developers. See the top-level COPYRIGHT file for details.
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#
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# SPDX-License-Identifier: (Apache-2.0 OR MIT)
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from spack import *
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class RAbaenrichment(RPackage):
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"""Gene expression enrichment in human brain regions.
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The package ABAEnrichment is designed to test for enrichment of user
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defined candidate genes in the set of expressed genes in different human
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brain regions. The core function 'aba_enrich' integrates the expression
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of the candidate gene set (averaged across donors) and the structural
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information of the brain using an ontology, both provided by the Allen
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Brain Atlas project. 'aba_enrich' interfaces the ontology enrichment
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software FUNC to perform the statistical analyses. Additional functions
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provided in this package like 'get_expression' and 'plot_expression'
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facilitate exploring the expression data, and besides the standard
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candidate vs. background gene set enrichment, also three additional
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tests are implemented, e.g. for cases when genes are ranked instead of
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divided into candidate and background."""
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homepage = "https://bioconductor.org/packages/ABAEnrichment"
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git = "https://git.bioconductor.org/packages/ABAEnrichment.git"
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version('1.14.1', commit='e1ebfb5de816b924af16675a5ba9ed1a6b527b23')
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version('1.12.0', commit='1320e932deafd71d67c7a6f758d15b00d6d7f7d7')
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version('1.10.0', commit='15f33ccb694a91d2d2067c937682c4bc952def6c')
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version('1.8.0', commit='cb8155ee9a04fb55b2a2e8c23df7c0be15bb2624')
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version('1.6.0', commit='d2a0467dcb7aa6e103e3b83dccd6510b0e142ac1')
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depends_on('r@3.2:', type=('build', 'run'))
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depends_on('r-rcpp@0.11.5:', type=('build', 'run'))
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depends_on('r-gplots@2.14.2:', type=('build', 'run'))
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depends_on('r-gtools@3.5.0:', type=('build', 'run'))
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depends_on('r-abadata@0.99.2:', type=('build', 'run'))
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depends_on('r@3.4:', when='@1.8.0:', type=('build', 'run'))
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depends_on('r-data-table@1.10.4:', when='@1.8.0:', type=('build', 'run'))
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depends_on('r-gofuncr@1.1.2:', when='@1.12.0:', type=('build', 'run'))
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