7b9f8abce5
Add language dependencies `c`, `cxx`, and `fortran`. These `depends_on` statements are auto-generated based on file extensions found in source tarballs/zipfiles. The `# generated` comment can be removed by package maintainers after validating correctness.
36 lines
1.5 KiB
Python
36 lines
1.5 KiB
Python
# Copyright 2013-2024 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.package import *
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class RRuv(RPackage):
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"""Detect and Remove Unwanted Variation using Negative Controls.
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Implements the 'RUV' (Remove Unwanted Variation) algorithms. These
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algorithms attempt to adjust for systematic errors of unknown origin in
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high-dimensional data. The algorithms were originally developed for use
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with genomic data, especially microarray data, but may be useful with other
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types of high-dimensional data as well. These algorithms were proposed in
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Gagnon-Bartsch and Speed (2012) <doi:10.1093/nar/gkz433>, Gagnon-Bartsch,
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Jacob and Speed (2013), and Molania, et. al. (2019)
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<doi:10.1093/nar/gkz433>. The algorithms require the user to specify a set
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of negative control variables, as described in the references. The
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algorithms included in this package are 'RUV-2', 'RUV-4', 'RUV-inv',
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'RUV-rinv', 'RUV-I', and RUV-III', along with various supporting
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algorithms."""
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cran = "ruv"
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license("GPL-2.0-or-later")
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version("0.9.7.1", sha256="a0c54e56ba3d8f6ae178ae4d0e417a79295abf5dcb68bbae26c4b874734d98d8")
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depends_on("c", type="build") # generated
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depends_on("r-ggplot2", type=("build", "run"))
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depends_on("r-scales", type=("build", "run"))
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depends_on("r-gridextra", type=("build", "run"))
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