A Computationally Efficient Projection-Based Approach for Spatial Generalized Linear Mixed Models

Inference for spatial generalized linear mixed models (SGLMMs) for high-dimensional non-Gaussian spatial data is computationally intensive. The computational challenge is due to the high-dimensional random effects and because Markov chain Monte Carlo (MCMC) algorithms for these models tend to be slow mixing. Moreover, spatial confounding inflates the variance of fixed effect (regression coefficient) estimates. Our approach addresses both the computational and confounding issues by replacing the high-dimensional spatial random effects with a reduced-dimensional representation based on random projections. Standard MCMC algorithms mix well and the reduced-dimensional setting speeds up computations per iteration. We show, via simulated examples, that Bayesian inference for this reduced-dimensional approach works well both in terms of inference as well as prediction, our methods also compare favorably to existing "reduced-rank" approaches. We also apply our methods to two real world data examples, one on bird count data and the other classifying rock types

Fixed-width output analysis for Markov chain Monte Carlo

Markov chain Monte Carlo is a method of producing a correlated sample in order to estimate features of a target distribution via ergodic averages. A fundamental question is when should sampling stop? That is, when are the ergodic averages good estimates of the desired quantities? We consider a method that stops the simulation when the width of a confidence interval based on an ergodic average is less than a user-specified value. Hence calculating a Monte Carlo standard error is a critical step in assessing the simulation output. We consider the regenerative simulation and batch means methods of estimating the variance of the asymptotic normal distribution. We give sufficient conditions for the strong consistency of both methods and investigate their finite sample properties in a variety of examples

Markov Chain Monte Carlo: Can We Trust the Third Significant Figure?

Current reporting of results based on Markov chain Monte Carlo computations could be improved. In particular, a measure of the accuracy of the resulting estimates is rarely reported. Thus we have little ability to objectively assess the quality of the reported estimates. We address this issue in that we discuss why Monte Carlo standard errors are important, how they can be easily calculated in Markov chain Monte Carlo and how they can be used to decide when to stop the simulation. We compare their use to a popular alternative in the context of two examples.Comment: Published in at http://dx.doi.org/10.1214/08-STS257 the Statistical Science (http://www.imstat.org/sts/) by the Institute of Mathematical Statistics (http://www.imstat.org

Calibrating an ice sheet model using high-dimensional binary spatial data

Rapid retreat of ice in the Amundsen Sea sector of West Antarctica may cause drastic sea level rise, posing significant risks to populations in low-lying coastal regions. Calibration of computer models representing the behavior of the West Antarctic Ice Sheet is key for informative projections of future sea level rise. However, both the relevant observations and the model output are high-dimensional binary spatial data; existing computer model calibration methods are unable to handle such data. Here we present a novel calibration method for computer models whose output is in the form of binary spatial data. To mitigate the computational and inferential challenges posed by our approach, we apply a generalized principal component based dimension reduction method. To demonstrate the utility of our method, we calibrate the PSU3D-ICE model by comparing the output from a 499-member perturbed-parameter ensemble with observations from the Amundsen Sea sector of the ice sheet. Our methods help rigorously characterize the parameter uncertainty even in the presence of systematic data-model discrepancies and dependence in the errors. Our method also helps inform environmental risk analyses by contributing to improved projections of sea level rise from the ice sheets