arabidopsis_TEs         Transposable element coordinates for
                        Arabidopsis (chr1)
arabidopsis_chromosomes
                        Chromosome lengths for Arabidopsis
arabidopsis_genes       Gene coordinates for Arabidopsis (chr1)
arabidopsis_toydata     Toy data for Arabidopsis (200.000bp of chr1)
binCounts               Bin counts in windows
binMethylome            Bin cytosine positions in windows
binPositions            Bin positions in windows
binomialTestMethylation
                        Call methylation status
callMethylation         Call methylation status
callMethylationSeparate
                        Call methylation status
collapseBins            Collapse consecutive bins
distanceCorrelation     Distance correlation
estimateTransDist       'transDist' parameter
exportMethylome         Export a methylome
extractCytosinesFromFASTA
                        Extract cytosine coordinates
getDistinctColors       Get distinct colors
getPosteriors           Get original posteriors
getStateColors          Get state colors
import                  Methimpute data import
importRene              Import a Rene methylation extractor file
inflateMethylome        Inflate an imported methylation extractor file
loadFromFiles           Load 'methimpute' objects from file
methimpute-objects      methimpute objects
methimpute-package      methIMPUTE: Imputation-guided methylation
                        status calling for WGBS-seq
methimputeBinomialHMM   methimputeBinomialHMM
methimputeData          methimputeData
parameterScan           Perform a parameter scan
plotting                Methimpute plotting functions
print.methimputeBinomialHMM
                        Print model object
transCoord              Transform genomic coordinates
