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) , Gagnon-Bartsch, Jacob and Speed (2013), and Molania, et. al. (2019) . 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.


Reference manual

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install.packages("ruv") by Johann Gagnon-Bartsch, 2 years ago

Browse source code at

Authors: Johann Gagnon-Bartsch <[email protected]>

Documentation:   PDF Manual  

GPL license

Imports stats, ggplot2, scales, gridExtra

Suggests shiny, colourpicker

Imported by cate.

Suggested by RUVIIIC.

See at CRAN