B2M                     Converting methylation beta value to M value.
M2B                     Converting methylation M value to beta value.
QCinfo                  Extract QC information
calcdetP                To calculate detection P values
combp                   Identification of differentially methylated
                        regions
ctrlsva                 Non-negative internal control surrogate
                        variables
dupicc                  Evaluation of measurement reliability using
                        duplicate samples
estimateCellProp        Cell type proportion estimator
freqpoly                Frequency polygon plot
getB                    Extract methylation Beta values.
getCGinfo               CpG probe annotation inforamtion
getmeth                 Create a methDataSet
ipdmr                   Differentially methylated regions
methDataSet-class       Class '"methDataSet"'
methscore               DNA Methylation predictors
methyAge                Methylation Age estimator
mhtplot                 P value manhattan plot
mpreprocess             methylation data QC and preprocessing pipeline
                        for Illuminal BeadChips
multifreqpoly           Multiple frequency polygon plot
nmode                   Estimating number of mode for each row of data
norm.quantile           Quantile normalization.
oxBS.MLE                oxBS-MLE.
p.qqplot                P value Q-Q plot
pcrplot                 Principal component regression plot
plotCtrl                Internal control plot
predSex                 Estimating sample sex
preprocessENmix         The ENmix background correction
qcfilter                Filtering out low quality and outlier data
rcp                     Illumina methylation array probe type bias
                        correction
rcp2                    Modified RCP method
readidat                Parsing IDAT files for Illumina methylation
                        arrays .
readmanifest            Parsing Illumina methylation arrays manifest
                        file.
relic                   REgression on Logarithm of Internal Control
                        probes (RELIC)
repicc                  Calculating intraclass correlation coefficient
                        using replicate samples
rgDataSet-class         Class '"rgDataSet"'
rm.cgsuffix             Remove suffix from CpG names and combine
                        duplicated CpGs
simubed                 Simulation of bed format example file.
