MethyLumi-class         The base class for storing Illumina Methylation
                        data
MethyLumiM-class        Class "MethyLumiM": for Illumina Methylation
                        microarray data
MethyLumiQC-class       Class to hold Illumina Methylation QC data
MethyLumiSet-class      Class to hold Illumina Methylation data
betas                   methylumi accessors
estimateM               Estimate methylation M-value matrix
extractBarcodeAndPosition
                        Extract the Barcode and Position Information
                        from Sentrix ID
featureFilter           Annotation-based Filtering of Features (CpG
                        sites) in a MethyLumiSet or MethyLumiM object
getAssayDataNameSubstitutions
                        Return a data.frame of AssayData name
                        substitutions.
methylumi-package       Handle Illumina methylation data
methylumiR              Load data from Illumina methylation platform
mldat                   Example SAM format Illumina methylation dataset
normalizeMethyLumiSet   Normalize a MethyLumiSet, accounting for dye
                        bias
plotSampleIntensities   Plot the sample intensities.
qcplot                  Methods for dealing with control data for
                        Illumina methylation data.
varFilter               Variation-based Filtering of Features (CpG
                        sites) in a MethyLumiSet or MethyLumiM object
