Fast Non-Parametric Bayesian Inference on Infinite Trees

Given i.i.d. data from an unknown distribution, we consider the problem of predicting future items. An adaptive way to estimate the probability density is to recursively subdivide the domain to an appropriate data-dependent granularity. A Bayesian would assign a data-independent prior probability to "subdivide", which leads to a prior over infinite(ly many) trees. We derive an exact, fast, and simple inference algorithm for such a prior, for the data evidence, the predictive distribution, the effective model dimension, and other quantities.Comment: 8 twocolumn pages, 3 figure

Fast non-parametric Bayesian inference on infinite trees

Given i.i.d. data from an unknown distribution, we consider the problem of predicting future items. An adaptive way to estimate the probability density is to recursively subdivide the domain to an appropriate data-dependent granularity. A Bayesian would assign a data-independent prior probability to "subdivide", which leads to a prior over infinite(ly many) trees. We derive an exact, fast, and simple inference algorithm for such a prior, for the data evidence, the predictive distribution, the effective model dimension, and other quantities

Syntactic Topic Models

The syntactic topic model (STM) is a Bayesian nonparametric model of language that discovers latent distributions of words (topics) that are both semantically and syntactically coherent. The STM models dependency parsed corpora where sentences are grouped into documents. It assumes that each word is drawn from a latent topic chosen by combining document-level features and the local syntactic context. Each document has a distribution over latent topics, as in topic models, which provides the semantic consistency. Each element in the dependency parse tree also has a distribution over the topics of its children, as in latent-state syntax models, which provides the syntactic consistency. These distributions are convolved so that the topic of each word is likely under both its document and syntactic context. We derive a fast posterior inference algorithm based on variational methods. We report qualitative and quantitative studies on both synthetic data and hand-parsed documents. We show that the STM is a more predictive model of language than current models based only on syntax or only on topics

Exact Non-Parametric Bayesian Inference on Infinite Trees

Given i.i.d. data from an unknown distribution, we consider the problem of predicting future items. An adaptive way to estimate the probability density is to recursively subdivide the domain to an appropriate data-dependent granularity. A Bayesian would assign a data-independent prior probability to "subdivide", which leads to a prior over infinite(ly many) trees. We derive an exact, fast, and simple inference algorithm for such a prior, for the data evidence, the predictive distribution, the effective model dimension, moments, and other quantities. We prove asymptotic convergence and consistency results, and illustrate the behavior of our model on some prototypical functions.Comment: 32 LaTeX pages, 9 figures, 5 theorems, 1 algorith

Populations in statistical genetic modelling and inference

What is a population? This review considers how a population may be defined in terms of understanding the structure of the underlying genetics of the individuals involved. The main approach is to consider statistically identifiable groups of randomly mating individuals, which is well defined in theory for any type of (sexual) organism. We discuss generative models using drift, admixture and spatial structure, and the ancestral recombination graph. These are contrasted with statistical models for inference, principle component analysis and other `non-parametric' methods. The relationships between these approaches are explored with both simulated and real-data examples. The state-of-the-art practical software tools are discussed and contrasted. We conclude that populations are a useful theoretical construct that can be well defined in theory and often approximately exist in practice