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A new R package for Bayesian estimation of multivariate normal mixtures allowing for selection of the number of components and interval-censored data

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  • Komárek, Arnost

Abstract

An R package mixAK is introduced which implements routines for a semiparametric density estimation through normal mixtures using the Markov chain Monte Carlo (MCMC) methodology. Besides producing the MCMC output, the package computes posterior summary statistics for important characteristics of the fitted distribution or computes and visualizes the posterior predictive density. For the estimated models, penalized expected deviance (PED) and deviance information criterion (DIC) is directly computed which allows for a selection of mixture components. Additionally, multivariate right-, left- and interval-censored observations are allowed. For univariate problems, the reversible jump MCMC algorithm has been implemented and can be used for a joint estimation of the mixture parameters and the number of mixture components. The core MCMC routines have been implemented in C++ and linked to R to ensure a reasonable computational speed. We briefly review the implemented algorithms and illustrate the use of the package on three real examples of different complexity.

Suggested Citation

  • Komárek, Arnost, 2009. "A new R package for Bayesian estimation of multivariate normal mixtures allowing for selection of the number of components and interval-censored data," Computational Statistics & Data Analysis, Elsevier, vol. 53(12), pages 3932-3947, October.
    • Handle: RePEc:eee:csdana:v:53:y:2009:i:12:p:3932-3947
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    References listed on IDEAS

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    1. Sylvia. Richardson & Peter J. Green, 1997. "On Bayesian Analysis of Mixtures with an Unknown Number of Components (with discussion)," Journal of the Royal Statistical Society Series B, Royal Statistical Society, vol. 59(4), pages 731-792.
    2. Bohning, Dankmar & Seidel, Wilfried & Alfo, Macro & Garel, Bernard & Patilea, Valentin & Walther, Gunther, 2007. "Advances in Mixture Models," Computational Statistics & Data Analysis, Elsevier, vol. 51(11), pages 5205-5210, July.
    3. David J. Spiegelhalter & Nicola G. Best & Bradley P. Carlin & Angelika Van Der Linde, 2002. "Bayesian measures of model complexity and fit," Journal of the Royal Statistical Society Series B, Royal Statistical Society, vol. 64(4), pages 583-639, October.
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    6. Ajay Jasra & David A. Stephens & Christopher C. Holmes, 2007. "Population-Based Reversible Jump Markov Chain Monte Carlo," Biometrika, Biometrika Trust, vol. 94(4), pages 787-807.
    7. Sisson, Scott A., 2005. "Transdimensional Markov Chains: A Decade of Progress and Future Perspectives," Journal of the American Statistical Association, American Statistical Association, vol. 100, pages 1077-1089, September.
    8. Olivier Cappé & Christian P. Robert & Tobias Rydén, 2003. "Reversible jump, birth‐and‐death and more general continuous time Markov chain Monte Carlo samplers," Journal of the Royal Statistical Society Series B, Royal Statistical Society, vol. 65(3), pages 679-700, August.
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    Cited by:

    1. Min Zhang & Chong Wang & Annette O’Connor, 2020. "A hierarchical Bayesian latent class mixture model with censorship for detection of linear temporal changes in antibiotic resistance," PLOS ONE, Public Library of Science, vol. 15(1), pages 1-18, January.

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