R: Detect and Remove Unwanted Variation using Negative Controls

ruv-package {ruv} | R Documentation

## Detect and Remove Unwanted Variation using Negative Controls

### Description

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 by Gagnon-Bartsch and Speed (2012), and by Gagnon-Bartsch, Jacob and Speed (2013). 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', and 'RUV-rinv', along with various supporting algorithms.

### Details

Package: | ruv
Type: | Package
Version: | 0.9.6
Date: | 2015-07-17
License: | GPL
LazyLoad: | yes
URL: | http://www.stat.berkeley.edu/~johann/ruv

### Note

Additional resources can be found at http://www.stat.berkeley.edu/~johann/ruv.

### Author(s)

Johann Gagnon-Bartsch <johanngb@umich.edu>

### References

Using control genes to correct for unwanted variation in microarray data. Gagnon-Bartsch and Speed, 2012. Available at: http://biostatistics.oxfordjournals.org/content/13/3/539.full.

Removing Unwanted Variation from High Dimensional Data with Negative Controls. Gagnon-Bartsch, Jacob, and Speed, 2013. Available at: http://statistics.berkeley.edu/tech-reports/820.

### See Also

`RUV2`, `RUV4`, `RUVinv`, `RUVrinv`, `variance_adjust`

[Package ruv version 0.9.6 Index]