39 lines
1.7 KiB
Python
39 lines
1.7 KiB
Python
# Copyright 2013-2022 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 RDmrcate(RPackage):
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"""Methylation array and sequencing spatial analysis methods.
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De novo identification and extraction of differentially methylated regions
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(DMRs) from the human genome using Whole Genome Bisulfite Sequencing (WGBS)
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and Illumina Infinium Array (450K and EPIC) data. Provides functionality
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for filtering probes possibly confounded by SNPs and cross-hybridisation.
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Includes GRanges generation and plotting functions."""
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bioc = "DMRcate"
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version('2.8.5', commit='c65dc79a33a047c10932a98b3383709a6bcb8903')
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version('2.4.1', commit='bc6242a0291a9b997872f575a4417d38550c9550')
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depends_on('r@3.6.0:', type=('build', 'run'))
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depends_on('r@4.0.0:', type=('build', 'run'), when='@2.8.5:')
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depends_on('r-experimenthub', type=('build', 'run'))
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depends_on('r-bsseq', type=('build', 'run'))
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depends_on('r-genomeinfodb', type=('build', 'run'))
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depends_on('r-limma', type=('build', 'run'))
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depends_on('r-edger', type=('build', 'run'))
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depends_on('r-dss', type=('build', 'run'))
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depends_on('r-minfi', type=('build', 'run'))
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depends_on('r-missmethyl', type=('build', 'run'))
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depends_on('r-genomicranges', type=('build', 'run'))
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depends_on('r-plyr', type=('build', 'run'))
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depends_on('r-gviz', type=('build', 'run'))
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depends_on('r-iranges', type=('build', 'run'))
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depends_on('r-s4vectors', type=('build', 'run'))
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depends_on('r-summarizedexperiment', type=('build', 'run'))
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