50 lines
2.5 KiB
Python
50 lines
2.5 KiB
Python
# Copyright 2013-2019 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 RTfbstools(RPackage):
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"""TFBSTools is a package for the analysis and manipulation of
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transcription factor binding sites.
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It includes matrices conversion between Position Frequency Matirx (PFM),
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Position Weight Matirx (PWM) and Information Content Matrix (ICM). It
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can also scan putative TFBS from sequence/alignment, query JASPAR
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database and provides a wrapper of de novo motif discovery software.
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TFBSTools is a package for the analysis and manipulation of
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transcription factor binding sites. It includes matrices conversion
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between Position Frequency Matirx (PFM), Position Weight Matirx (PWM)
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and Information Content Matrix (ICM). It can also scan putative TFBS
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from sequence/alignment, query JASPAR database and provides a wrapper
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of de novo motif discovery software."""
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homepage = "http://bioconductor.org/packages/TFBSTools/"
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git = "https://git.bioconductor.org/packages/TFBSTools.git"
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version('1.16.0', commit='565436a5a674d4dea7279e796a20c5bd2034f65a')
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depends_on('r-biobase@2.28:', type=('build', 'run'))
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depends_on('r-biostrings@2.36.4:', type=('build', 'run'))
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depends_on('r-biocgenerics@0.14.0:', type=('build', 'run'))
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depends_on('r-biocparallel@1.2.21:', type=('build', 'run'))
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depends_on('r-bsgenome@1.36.3:', type=('build', 'run'))
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depends_on('r-catools@1.17.1:', type=('build', 'run'))
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depends_on('r-cner@1.4.0:', type=('build', 'run'))
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depends_on('r-dirichletmultinomial@1.10.0:', type=('build', 'run'))
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depends_on('r-genomeinfodb@1.6.1:', type=('build', 'run'))
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depends_on('r-genomicranges@1.20.6:', type=('build', 'run'))
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depends_on('r-gtools@3.5.0:', type=('build', 'run'))
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depends_on('r-iranges@2.2.7:', type=('build', 'run'))
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depends_on('r-dbi@0.6:', type=('build', 'run'))
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depends_on('r-rsqlite@1.0.0:', type=('build', 'run'))
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depends_on('r-rtracklayer@1.28.10:', type=('build', 'run'))
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depends_on('r-seqlogo@1.34.0:', type=('build', 'run'))
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depends_on('r-s4vectors@0.9.25:', type=('build', 'run'))
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depends_on('r-tfmpvalue@0.0.5:', type=('build', 'run'))
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depends_on('r-xml@3.98-1.3:', type=('build', 'run'))
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depends_on('r-xvector@0.8.0:', type=('build', 'run'))
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depends_on('r@3.4.3:3.4.9', when='@1.16.0')
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