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Register a new userGibbs Sampling for a Bayesian Hierarchical General Linear Model
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Added by
Alicia Johnson
Publication date
2010
fields
Mathematical Statistics
and research's language is
English
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We consider a Bayesian hierarchical version of the normal theory general linear model which is practically relevant in the sense that it is general enough to have many applications and it is not straightforward to sample directly from the corresponding posterior distribution. Thus we study a block Gibbs sampler that has the posterior as its invariant distribution. In particular, we establish that the Gibbs sampler converges at a geometric rate. This allows us to establish conditions for a central limit theorem for the ergodic averages used to estimate features of the posterior. Geometric ergodicity is also a key component for using batch means methods to consistently estimate the variance of the asymptotic normal distribution. Together, our results give practitioners the tools to be as confident in inferences based on the observations from the Gibbs sampler as they would be with inferences based on random samples from the posterior. Our theoretical results are illustrated with an application to data on the cost of health plans issued by health maintenance organizations.
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Exact inference for hidden Markov models requires the evaluation of all distributions of interest - filtering, prediction, smoothing and likelihood - with a finite computational effort. This article provides sufficient conditions for exact inference for a class of hidden Markov models on general state spaces given a set of discretely collected indirect observations linked non linearly to the signal, and a set of practical algorithms for inference. The conditions we obtain are concerned with the existence of a certain type of dual process, which is an auxiliary process embedded in the time reversal of the signal, that in turn allows to represent the distributions and functions of interest as finite mixtures of elementary densities or products thereof. We describe explicitly how to update recursively the parameters involved, yielding qualitatively similar results to those obtained with Baum--Welch filters on finite state spaces. We then provide practical algorithms for implementing the recursions, as well as approximations thereof via an informed pruning of the mixtures, and we show superior performance to particle filters both in accuracy and computational efficiency. The code for optimal filtering, smoothing and parameter inference is made available in the Julia package DualOptimalFiltering.
Nested sampling is a simulation method for approximating marginal likelihoods proposed by Skilling (2006). We establish that nested sampling has an approximation error that vanishes at the standard Monte Carlo rate and that this error is asymptotically Gaussian. We show that the asymptotic variance of the nested sampling approximation typically grows linearly with the dimension of the parameter. We discuss the applicability and efficiency of nested sampling in realistic problems, and we compare it with two current methods for computing marginal likelihood. We propose an extension that avoids resorting to Markov chain Monte Carlo to obtain the simulated points.
Among Monte Carlo techniques, the importance sampling requires fine tuning of a proposal distribution, which is now fluently resolved through iterative schemes. The Adaptive Multiple Importance Sampling (AMIS) of Cornuet et al. (2012) provides a significant improvement in stability and effective sample size due to the introduction of a recycling procedure. However, the consistency of the AMIS estimator remains largely open. In this work we prove the convergence of the AMIS, at a cost of a slight modification in the learning process. Contrary to Douc et al. (2007a), results are obtained here in the asymptotic regime where the number of iterations is going to infinity while the number of drawings per iteration is a fixed, but growing sequence of integers. Hence some of the results shed new light on adaptive population Monte Carlo algorithms in that last regime.
In this paper, we analyze the convergence rate of a collapsed Gibbs sampler for crossed random effects models. Our results apply to a substantially larger range of models than previous works, including models that incorporate missingness mechanism and unbalanced level data. The theoretical tools involved in our analysis include a connection between relaxation time and autoregression matrix, concentration inequalities, and random matrix theory.
This note presents a simple and elegant sampler which could be used as an alternative to the reversible jump MCMC methodology.
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