BSBinAggregate          Bins regions and aggregates methylation data
                        across the regions by bin
BSreadBiSeq             Read in files from biseq meth caller
MIRA                    Methylation-based Inference of Regulatory
                        Activity (MIRA)
SummarizedExperimentToDataTable
                        Make MIRA-compatible data.tables using
                        information from SummarizedExperiment-based
                        classes
addMethPropCol          Add column for proportion of methylation
aggregateMethyl         Aggregate methylation data to get a summary
                        methylation profile for each region set
bigBinDT1               DNA methylation data for the "Applying MIRA to
                        a Biological Question" vignette (1st part).
bigBinDT2               DNA methylation data for the "Applying MIRA to
                        a Biological Question" vignette (2nd part).
binRegion               Divide region into similarly sized bins.
bsseqToDataTable        Convert a BSseq object to data.table format for
                        MIRA.
calcMIRAScore           Score methylation profile based on its shape
exampleAnnoDT1          A data.table with annotation for a bisulfite
                        sample.
exampleAnnoDT2          Annotation data for the "Applying MIRA to a
                        Biological Question" vignette.
exampleBSDT             A data.table containing DNA methylation data.
exampleBSseqObj         A small BSseq object.
exampleBins             A data.table with artificial binned methylation
                        data
exampleRegionSet        A Granges object with Nrf1-binding regions.
plotMIRAProfiles        Plot summary methylation profile
plotMIRAScores          Plot MIRA scores and compare different
                        conditions
rbindNamedList          Combine data.tables from a named list into one
                        big data.table with extra column for name.
