MethyGenoSet-class      Class MethyGenoSet: contain and describe
                        Illumina Infinium methylation data in
                        GenoSet-class
MethyLumiM2GenoSet      Coerce objects of MethyLumiM-class to
                        MethyGenoSet
annotateDMRInfo         Annotate the DMR (Differentially Methylated
                        Region)
annotateGRanges         Annotate a GRanges object
asBigMatrix-methods     convert the data matrix in the assayData of a
                        GenoSet as BigMatrix
buildAnnotationTracks   Build annotation tracks for visualizing using
                        Gviz package
checkChrName            check chromosome names
createTranscriptTrack   Create a transcript annotation track
detectDMR.slideWin      Detect DMR (Differentially Methylated Region)
                        using slide window smoothing
exampleMethyGenoSet     Example MethyGenoSet dataset
export.DMRInfo          Output the DMR (Differentially Methylated
                        Region) data information
export.methyGenoSet     Export a MethyGenoSet object to be visualized
                        using external genome browser tools
getContinuousRegion     Get continuous chromosome region by merging
                        nearby or overlapping regions
heatmapByChromosome     heatmap with chromosome location as x axis
identifySigDMR          Identify significantly DMR (Differentially
                        Methylated Region)
plotHeatmapByGene       plot methylation heatmap by genes
plotMethylationHeatmapByGene
                        plot methylation heatmap by genes
plotTracksWithDataTrackInfo
                        plot Tracks with additional DataTrack
                        information added to the left of the plot
smoothMethyData         Smooth the methylation data
