R: Detect and Remove Unwanted Variation using Negative Controls

# Detect and Remove Unwanted Variation using Negative Controls

## Documentation for package ‘ruv’ version 0.9.7.1

- DESCRIPTION file.

## Help Pages

ruv-package | Detect and Remove Unwanted Variation using Negative Controls
collapse.replicates | Collapse Replicates
design.matrix | Design Matrix
getK | Get K
get_empirical_variances | Get empirical variances
google_search | Google Search URL
inputcheck1 | Input Check One
invvar | Inverse Method Variances
projectionplotvariables | Projection Plot Variables
randinvvar | (Randomization) Inverse Method Variances
replicate.matrix | Replicate (Mapping) Matrix
residop | Residual Operator
ruv | Detect and Remove Unwanted Variation using Negative Controls
RUV1 | RUV-I
RUV2 | Remove Unwanted Variation, 2-step
RUV4 | Remove Unwanted Variation, 4-step
RUVI | RUV-I
RUVIII | RUV-III
RUVinv | Remove Unwanted Variation, inverse method
RUVrinv | Remove Unwanted Variation, ridged inverse method
ruv_cancorplot | RUV Canonical Correlation Plot
ruv_ecdf | RUV P-value Empirical CDF Plot
ruv_hist | RUV P-value Histogram Plot
ruv_projectionplot | RUV Projection Plot
ruv_rankplot | RUV Rank Plot
ruv_residuals | RUV Residuals
ruv_rle | RUV RLE Plot
ruv_scree | RUV Scree Plot
ruv_shiny | RUV Shiny App
ruv_summary | RUV Summary
ruv_svdgridplot | RUV SVD Grid Plot
ruv_svdplot | RUV SVD Plot
ruv_varianceplot | RUV Variance Plot
ruv_volcano | RUV Volcano Plot
sigmashrink | Empirical Bayes shrinkage estimate of sigma^2
variance_adjust | Adjust Estimated Variances