assignMutations         Mutation Assignment
assignQuantityToMutation
                        Quantity assignment (copy number) to mutations
assignQuantityToSP      Quantity assignment (ploidy) to subpopulations
buildMultiSamplePhylo   Relations between inter- and intra-sample
                        subpopulations
buildPhylo              Relations between subpopulations
cbs                     Matrix of copy number fragments
cellfrequency_pdf       Computes the probability distribution of
                        cellular frequencies for a single mutation.
clusterCellFrequencies
                        Clustering of cellular frequency probability
                        distributions
computeCellFrequencyDistributions
                        Gathering of cell frequency probability
                        distributions
plotSPs                 Subpopulation Visualization
roi                     Regions of interest
runExPANdS              Main Function
snv                     Single Nucleotide Variations
