50 lines
2.4 KiB
Python
50 lines
2.4 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 RGgbio(RPackage):
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"""The ggbio package extends and specializes the grammar of graphics for
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biological data. The graphics are designed to answer common scientific
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questions, in particular those often asked of high throughput genomics
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data. All core Bioconductor data structures are supported, where
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appropriate. The package supports detailed views of particular genomic
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regions, as well as genome-wide overviews. Supported overviews include
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ideograms and grand linear views. High-level plots include sequence
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fragment length, edge-linked interval to data view, mismatch pileup,
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and several splicing summaries."""
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homepage = "http://bioconductor.org/packages/ggbio/"
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git = "https://git.bioconductor.org/packages/ggbio.git"
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version('1.24.1', commit='ef04c1bca1330f37152bcc21080cbde94849a094')
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depends_on('r-gridextra', type=('build', 'run'))
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depends_on('r-scales', type=('build', 'run'))
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depends_on('r-reshape2', type=('build', 'run'))
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depends_on('r-gtable', type=('build', 'run'))
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depends_on('r-hmisc', type=('build', 'run'))
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depends_on('r-biovizbase', type=('build', 'run'))
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depends_on('r-biobase', type=('build', 'run'))
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depends_on('r-s4vectors', type=('build', 'run'))
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depends_on('r-iranges', type=('build', 'run'))
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depends_on('r-genomeinfodb', type=('build', 'run'))
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depends_on('r-genomicranges', type=('build', 'run'))
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depends_on('r-summarizedexperiment', type=('build', 'run'))
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depends_on('r-biostrings', type=('build', 'run'))
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depends_on('r-rsamtools', type=('build', 'run'))
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depends_on('r-genomicalignments', type=('build', 'run'))
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depends_on('r-bsgenome', type=('build', 'run'))
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depends_on('r-variantannotation', type=('build', 'run'))
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depends_on('r-rtracklayer', type=('build', 'run'))
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depends_on('r-genomicfeatures', type=('build', 'run'))
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depends_on('r-organismdbi', type=('build', 'run'))
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depends_on('r-ggally', type=('build', 'run'))
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depends_on('r-ensembldb', type=('build', 'run'))
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depends_on('r-annotationdbi', type=('build', 'run'))
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depends_on('r-annotationfilter', type=('build', 'run'))
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depends_on('r@3.4.0:3.4.9', when='@1.24.1')
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