Factorial Hidden Markov Models

Due to the simplicity and efficiency of its parameter estimation algorithm, the hidden Markov model (HMM) has emerged as one of the basic statistical tools for modeling discrete time series, finding widespread application in the areas of speech recognition (Rabinerand Juang, 1986) and computational molecular biology (Baldi et al., 1994). An HMM is essentially a mixture model, encoding information about the history of a time series in the value of a single multinomial variable (the hidden state). This multinomial assumption allows an efficient parameter estimation algorithm tobe derived (the Baum-Welch algorithm). However, it also severely limits the representational capacity of HMMs.