Basal                   Bin-level and region-level data from basal
                        mouse brain samples
CallCandidates          Call candidate m6A regions or candidate
                        differential m6A regions.
CallDMRs.paramEsti      Model fitting and parameter estimation by TRESS
                        for each candidate DMR.
CallPeaks.multiRep      m6A peak calling with multiple replicates.
CallPeaks.oneRep        m6A peak calling with only one replicate.
CallPeaks.paramEsti     Parameter estimation in m6A peak calling with
                        multiple replicates.
CoefName                Obtain the name of each coefficient in design
                        matrix.
DMRInfer                P-value calculation given Wald statistics.
DMR_M3vsWT              Transcriptome location and read counts of 200
                        candidate DMRs, and size factors.
DMR_SixWeekvsTwoWeek    Transcriptome location and read counts of 200
                        candidate DMRs.
DivideBins              Obtain genomic bins and bin-level read counts
                        from BAM files.
ShowOnePeak             Visulization of a single peak along the genome.
TRESS_DMRfit            Differential m6A methylation analysis for
                        MeRIP-seq data under general experimental
                        design
TRESS_DMRtest           Hypothesis testing on candidate DMRs.
TRESS_peak              Detecting m6A methylation regions from
                        Methylated RNA Immunoprecipitation Sequencing.
filterRegions           Pre-filtering of candidate DMRs.
findBumps               Bump-finding from transcriptome bins.
meRatio                 Observed m6A methylation ratio.
