29 lines
1.2 KiB
Python
29 lines
1.2 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 REdger(RPackage):
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"""Differential expression analysis of RNA-seq expression profiles with
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biological replication. Implements a range of statistical methodology
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based on the negative binomial distributions, including empirical Bayes
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estimation, exact tests, generalized linear models and quasi-likelihood
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tests. As well as RNA-seq, it be applied to differential signal analysis
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of other types of genomic data that produce counts, including ChIP-seq,
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SAGE and CAGE."""
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homepage = "https://bioconductor.org/packages/edgeR/"
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git = "https://git.bioconductor.org/packages/edgeR.git"
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version('3.22.3', commit='e82e54afc9398ac54dc4caba0f7ae5c43e572203')
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version('3.18.1', commit='101106f3fdd9e2c45d4a670c88f64c12e97a0495')
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depends_on('r-limma', type=('build', 'run'))
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depends_on('r-locfit', type=('build', 'run'))
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depends_on('r-rcpp', type=('build', 'link', 'run'))
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depends_on('r@3.5.0:3.5.9', when='@3.22.3')
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depends_on('r@3.4.0:3.4.9', when='@3.18.1')
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