A Framework for Bioacoustic Vocalization Analysis Using Hidden Markov Models

Using Hidden Markov Models (HMMs) as a recognition framework for automatic classification of animal vocalizations has a number of benefits, including the ability to handle duration variability through nonlinear time alignment, the ability to incorporate complex language or recognition constraints, and easy extendibility to continuous recognition and detection domains. In this work, we apply HMMs to several different species and bioacoustic tasks using generalized spectral features that can be easily adjusted across species and HMM network topologies suited to each task. This experimental work includes a simple call type classification task using one HMM per vocalization for repertoire analysis of Asian elephants, a language-constrained song recognition task using syllable models as base units for ortolan bunting vocalizations, and a stress stimulus differentiation task in poultry vocalizations using a non-sequential model via a one-state HMM with Gaussian mixtures. Results show strong performance across all tasks and illustrate the flexibility of the HMM framework for a variety of species, vocalization types, and analysis tasks

Latent Markov model for longitudinal binary data: An application to the performance evaluation of nursing homes

Performance evaluation of nursing homes is usually accomplished by the repeated administration of questionnaires aimed at measuring the health status of the patients during their period of residence in the nursing home. We illustrate how a latent Markov model with covariates may effectively be used for the analysis of data collected in this way. This model relies on a not directly observable Markov process, whose states represent different levels of the health status. For the maximum likelihood estimation of the model we apply an EM algorithm implemented by means of certain recursions taken from the literature on hidden Markov chains. Of particular interest is the estimation of the effect of each nursing home on the probability of transition between the latent states. We show how the estimates of these effects may be used to construct a set of scores which allows us to rank these facilities in terms of their efficacy in taking care of the health conditions of their patients. The method is used within an application based on data concerning a set of nursing homes located in the Region of Umbria, Italy, which were followed for the period 2003--2005.Comment: Published in at http://dx.doi.org/10.1214/08-AOAS230 the Annals of Applied Statistics (http://www.imstat.org/aoas/) by the Institute of Mathematical Statistics (http://www.imstat.org