spack/var/spack/repos/builtin/packages/r-ruv/package.py
2021-04-20 11:09:48 +02:00

33 lines
1.4 KiB
Python

# Copyright 2013-2021 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 RRuv(RPackage):
"""Detect and Remove Unwanted Variation using Negative Controls:
Implements the 'RUV' (Remove Unwanted Variation) algorithms. These
algorithms attempt to adjust for systematic errors of unknown origin in
high-dimensional data. The algorithms were originally developed for use
with genomic data, especially microarray data, but may be useful with other
types of high-dimensional data as well. These algorithms were proposed in
Gagnon-Bartsch and Speed (2012) <doi:10.1093/nar/gkz433>, Gagnon-Bartsch,
Jacob and Speed (2013), and Molania, et. al. (2019)
<doi:10.1093/nar/gkz433>. The algorithms require the user to specify a set
of negative control variables, as described in the references. The
algorithms included in this package are 'RUV-2', 'RUV-4', 'RUV-inv',
'RUV-rinv', 'RUV-I', and RUV-III', along with various supporting
algorithms."""
homepage = "http://www-personal.umich.edu/~johanngb/ruv/"
cran = "ruv"
version('0.9.7.1', sha256='a0c54e56ba3d8f6ae178ae4d0e417a79295abf5dcb68bbae26c4b874734d98d8')
depends_on('r-ggplot2', type=('build', 'run'))
depends_on('r-scales', type=('build', 'run'))
depends_on('r-gridextra', type=('build', 'run'))