breaks                  Identify breakpoints from the hidden Markov
                        model predictions
copynumberEmission      Emission probabilities for copy number
genotypeEmission        Emission probabilities for di-allelic genotype
                        calls
genotypeEmissionCrlmm   Estimate the emission probabilities using
                        confidence scores from CRLMM
hmm                     Wrapper for fitting the HMM
locusLevelData          Basic data elements required for the HMM
transitionProbability   Compute the transition probability
viterbi                 viterbi algorithm
