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# Copyright 2013-2018 Lawrence Livermore National Security, LLC and other
# Spack Project Developers. See the top-level COPYRIGHT file for details.
#
# SPDX-License-Identifier: (Apache-2.0 OR MIT)
from spack import *
class RYapsa(RPackage):
"""This package provides functions and routines useful in the analysis of
somatic signatures (cf. L. Alexandrov et al., Nature 2013). In
particular, functions to perform a signature analysis with known
signatures (LCD = linear combination decomposition) and a signature
analysis on stratified mutational catalogue (SMC = stratify mutational
catalogue) are provided."""
homepage = "http://bioconductor.org/packages/YAPSA/"
git = "https://git.bioconductor.org/packages/YAPSA.git"
version('1.2.0', commit='320809b69e470e30a777a383f8341f93064ec24d')
depends_on('r-genomicranges', type=('build', 'run'))
depends_on('r-ggplot2', type=('build', 'run'))
depends_on('r-lsei', type=('build', 'run'))
depends_on('r-somaticsignatures', type=('build', 'run'))
depends_on('r-variantannotation', type=('build', 'run'))
depends_on('r-genomeinfodb', type=('build', 'run'))
depends_on('r-reshape2', type=('build', 'run'))
depends_on('r-gridextra', type=('build', 'run'))
depends_on('r-corrplot', type=('build', 'run'))
depends_on('r-dendextend', type=('build', 'run'))
depends_on('r-getoptlong', type=('build', 'run'))
depends_on('r-gtrellis', type=('build', 'run'))
depends_on('r-pmcmr', type=('build', 'run'))
depends_on('r-complexheatmap', type=('build', 'run'))
depends_on('r-keggrest', type=('build', 'run'))
depends_on('r@3.4.0:3.4.9', when='@1.2.0')
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