rcpp_viterbi {srnadiff} | R Documentation |
Run the Viterbi algorithm on the HMM.
rcpp_viterbi(chromosomeSizes, transitions, emissions, emissionThreshold, starts, counts, pvalues, lengths, values, minDepth, minSize, maxSize)
chromosomeSizes |
the sizes of the chromosomes |
transitions |
the transition log-probabilities |
emissions |
the emission log-probabilities |
emissionThreshold |
the emission threshold |
starts |
the start log-probabilities |
counts |
the unique counts |
pvalues |
the p-values of the counts |
lengths |
the sizes of the RLEs (one list per chromosome) |
values |
the values of the RLEs (one list per chromosome) |
minDepth |
the minimum read coverage |
minSize |
the minimum size region |
maxSize |
the maximum size region |
a segmentation of the chromosomes