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author | Glenn Johnson <glenn-johnson@uiowa.edu> | 2021-04-20 04:09:48 -0500 |
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committer | GitHub <noreply@github.com> | 2021-04-20 11:09:48 +0200 |
commit | 37263d7b717aee35e25ce5401655404256b97da4 (patch) | |
tree | 63cf9124f994bac312c34831c828a917f80699ee /var | |
parent | 11c529fddcd57b25d960ccd26d319d479521780c (diff) | |
download | spack-37263d7b717aee35e25ce5401655404256b97da4.tar.gz spack-37263d7b717aee35e25ce5401655404256b97da4.tar.bz2 spack-37263d7b717aee35e25ce5401655404256b97da4.tar.xz spack-37263d7b717aee35e25ce5401655404256b97da4.zip |
r-ruv: new package (#23113)
Diffstat (limited to 'var')
-rw-r--r-- | var/spack/repos/builtin/packages/r-ruv/package.py | 32 |
1 files changed, 32 insertions, 0 deletions
diff --git a/var/spack/repos/builtin/packages/r-ruv/package.py b/var/spack/repos/builtin/packages/r-ruv/package.py new file mode 100644 index 0000000000..da1b3ddc0b --- /dev/null +++ b/var/spack/repos/builtin/packages/r-ruv/package.py @@ -0,0 +1,32 @@ +# 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')) |