A Tutorial on Bayesian Nonparametric Models

A key problem in statistical modeling is model selection, how to choose a model at an appropriate level of complexity. This problem appears in many settings, most prominently in choosing the number ofclusters in mixture models or the number of factors in factor analysis. In this tutorial we describe Bayesian nonparametric methods, a class of methods that side-steps this issue by allowing the data to determine the complexity of the model. This tutorial is a high-level introduction to Bayesian nonparametric methods and contains several examples of their application.Comment: 28 pages, 8 figure

General state-space population dynamics model for Bayesian stock assessment

201

Spatial Joint Species Distribution Modeling using Dirichlet Processes

Species distribution models usually attempt to explain presence-absence or abundance of a species at a site in terms of the environmental features (socalled abiotic features) present at the site. Historically, such models have considered species individually. However, it is well-established that species interact to influence presence-absence and abundance (envisioned as biotic factors). As a result, there has been substantial recent interest in joint species distribution models with various types of response, e.g., presence-absence, continuous and ordinal data. Such models incorporate dependence between species response as a surrogate for interaction. The challenge we focus on here is how to address such modeling in the context of a large number of species (e.g., order 102) across sites numbering in the order of 102 or 103 when, in practice, only a few species are found at any observed site. Again, there is some recent literature to address this; we adopt a dimension reduction approach. The novel wrinkle we add here is spatial dependence. That is, we have a collection of sites over a relatively small spatial region so it is anticipated that species distribution at a given site would be similar to that at a nearby site. Specifically, we handle dimension reduction through Dirichlet processes joined with spatial dependence through Gaussian processes. We use both simulated data and a plant communities dataset for the Cape Floristic Region (CFR) of South Africa to demonstrate our approach. The latter consists of presence-absence measurements for 639 tree species on 662 locations. Through both data examples we are able to demonstrate improved predictive performance using the foregoing specification

Temporal Topic Analysis with Endogenous and Exogenous Processes

We consider the problem of modeling temporal textual data taking endogenous and exogenous processes into account. Such text documents arise in real world applications, including job advertisements and economic news articles, which are influenced by the fluctuations of the general economy. We propose a hierarchical Bayesian topic model which imposes a "group-correlated" hierarchical structure on the evolution of topics over time incorporating both processes, and show that this model can be estimated from Markov chain Monte Carlo sampling methods. We further demonstrate that this model captures the intrinsic relationships between the topic distribution and the time-dependent factors, and compare its performance with latent Dirichlet allocation (LDA) and two other related models. The model is applied to two collections of documents to illustrate its empirical performance: online job advertisements from DirectEmployers Association and journalists' postings on BusinessInsider.com