Adaptive Robust Regression normalization for Illumina methylation data


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Documentation for package ‘ARRmNormalization’ version 1.48.0

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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