# Adaptive Robust Regression normalization for Illumina methylation data

## Documentation for package ‘ARRmNormalization’ version 1.16.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.

## Help Pages

ARRmNormalization-package | ARRm normalization for Illumina methylation data
ARRmNormalization | ARRm normalization for Illumina methylation data
getBackground | Estimate background intensity from the negative control probes
getCoefficients | Return the coefficients from the ARRm linear model
getDesignInfo | Build the chip and position indices
getQuantiles | Return the percentiles of a betaMatrix for each probe type
normalizeARRm | Perform ARRm normalization
positionPlots | Plots to evalue chip position effects on different percentiles
ProbesType | Probe Design information for the 450k methylation assay
quantilePlots | Diagnostic plots for evaluation of background effects and dye bias effects on different percentiles