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Approximate Bayesian computation with functional statistics

Author

Listed:
  • Soubeyrand Samuel
  • Guiton François
  • Klein Etienne K.

    (INRA, UR546 Biostatistics and Spatial Processes, F-84914 Avignon, France)

  • Carpentier Florence

    (AgroParis Tech, Dpt. SVS, F-75231 Paris, France)

Abstract

Functional statistics are commonly used to characterize spatial patterns in general and spatial genetic structures in population genetics in particular. Such functional statistics also enable the estimation of parameters of spatially explicit (and genetic) models. Recently, Approximate Bayesian Computation (ABC) has been proposed to estimate model parameters from functional statistics. However, applying ABC with functional statistics may be cumbersome because of the high dimension of the set of statistics and the dependences among them. To tackle this difficulty, we propose an ABC procedure which relies on an optimized weighted distance between observed and simulated functional statistics. We applied this procedure to a simple step model, a spatial point process characterized by its pair correlation function and a pollen dispersal model characterized by genetic differentiation as a function of distance. These applications showed how the optimized weighted distance improved estimation accuracy. In the discussion, we consider the application of the proposed ABC procedure to functional statistics characterizing non-spatial processes.

Suggested Citation

  • Soubeyrand Samuel & Guiton François & Klein Etienne K. & Carpentier Florence, 2013. "Approximate Bayesian computation with functional statistics," Statistical Applications in Genetics and Molecular Biology, De Gruyter, vol. 12(1), pages 17-37, March.
    • Handle: RePEc:bpj:sagmbi:v:12:y:2013:i:1:p:17-37:n:3
    DOI: 10.1515/sagmb-2012-0014
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    References listed on IDEAS

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    1. Nunes Matthew A & Balding David J, 2010. "On Optimal Selection of Summary Statistics for Approximate Bayesian Computation," Statistical Applications in Genetics and Molecular Biology, De Gruyter, vol. 9(1), pages 1-16, September.
    2. Paul Fearnhead & Dennis Prangle, 2012. "Constructing summary statistics for approximate Bayesian computation: semi-automatic approximate Bayesian computation," Journal of the Royal Statistical Society Series B, Royal Statistical Society, vol. 74(3), pages 419-474, June.
    3. Jung Hsuan & Marjoram Paul, 2011. "Choice of Summary Statistic Weights in Approximate Bayesian Computation," Statistical Applications in Genetics and Molecular Biology, De Gruyter, vol. 10(1), pages 1-23, September.
    4. Joyce Paul & Marjoram Paul, 2008. "Approximately Sufficient Statistics and Bayesian Computation," Statistical Applications in Genetics and Molecular Biology, De Gruyter, vol. 7(1), pages 1-18, August.
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    1. Soubeyrand, Samuel & Haon-Lasportes, Emilie, 2015. "Weak convergence of posteriors conditional on maximum pseudo-likelihood estimates and implications in ABC," Statistics & Probability Letters, Elsevier, vol. 107(C), pages 84-92.
    2. Ninna Vihrs & Jesper Møller & Alan E. Gelfand, 2022. "Approximate Bayesian inference for a spatial point process model exhibiting regularity and random aggregation," Scandinavian Journal of Statistics, Danish Society for Theoretical Statistics;Finnish Statistical Society;Norwegian Statistical Association;Swedish Statistical Association, vol. 49(1), pages 185-210, March.

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