Software to fit Hidden Markov Models
This software is used to fit Hidden Markov Models in Stochastic models for heterogeneous DNA sequences. Churchill GA. Bull Math Biol. 1989;51(1):79-94.
Programs are written in C with example input and output. The makefile is configured to compile "tssm" a general smoother and "tsem" maximum likelihood parameter estimation. For more details refer to Churchill 1989.