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 |