Efficient Sequential Monte Carlo Algorithms for Integrated Population Models

Axel Finke (), Ruth King (), Alexandros Beskos () and Petros Dellaportas
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Axel Finke: National University of Singapore
Ruth King: University of Edinburgh
Alexandros Beskos: University College London

Journal of Agricultural, Biological and Environmental Statistics, 2019, vol. 24, issue 2, No 2, 204-224

Abstract: Abstract In statistical ecology, state-space models are commonly used to represent the biological mechanisms by which population counts—often subdivided according to characteristics such as age group, gender or breeding status—evolve over time. As the counts are only noisily or partially observed, they are typically not sufficiently informative about demographic parameters of interest and must be combined with additional ecological observations within an integrated data analysis. Fitting integrated models can be challenging, especially if the constituent state-space model is nonlinear/non-Gaussian. We first propose an efficient particle Markov chain Monte Carlo algorithm to estimate demographic parameters without a need for linear or Gaussian approximations. We then incorporate this algorithm into a sequential Monte Carlo sampler to perform model comparison. We also exploit the integrated model structure to enhance the efficiency of both algorithms. The methods are demonstrated on two real data sets: little owls and grey herons. For the owls, we find that the data do not support an ecological hypothesis found in the literature. For the herons, our methodology highlights the limitations of existing models which we address through a novel regime-switching model. Supplementary materials accompanying this paper appear online.

Keywords: Bayesian inference; Capture–recapture; Integrated population models; Model comparison; Sequential Monte Carlo; State-space models (search for similar items in EconPapers)
Date: 2019
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DOI: 10.1007/s13253-018-00349-9

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