HMC include being sensitive to parameter tuning and being restricted to continuous distributions.

A number of dependent nonparametric processes have been proposed to model non-stationary data with unknown latent dimensionality. However, the inference algorithms are often slow and unwieldy, and are in general highly specific to a given model formulation. In this paper, we describe a large class of dependent nonparametric processes, including several existing models, and present a slice sampler that allows efficient inference across this class of models.

We unify slice sampling and Hamiltonian Monte Carlo (HMC) sampling, demonstrating their connection via the Hamiltonian-Jacobi equation from Hamiltonian mechanics. This insight enables extension of HMC and slice sampling to a broader family of samplers, called Monomial Gamma Samplers (MGS). We provide a theoretical analysis of the mixing performance of such samplers, proving that in the limit of a single parameter, the MGS draws decorrelated samples from the desired target distribution. We further show that as this parameter tends toward this limit, performance gains are achieved at a cost of increasing numerical difficulty and some practical convergence issues. Our theoretical results are validated with synthetic data and real-world applications.

We propose the Plaid Atoms Model (PAM), a novel Bayesian nonparametric model for grouped data. Founded on an idea of `atom skipping', PAM is part of a well-established category of models that generate dependent random distributions and clusters across multiple groups. Atom skipping referrs to stochastically assigning 0 weights to atoms in an infinite mixture. Deploying atom skipping across groups, PAM produces a dependent clustering pattern with overlapping and non-overlapping clusters across groups. As a result, interpretable posterior inference is possible such as reporting the posterior probability of a cluster being exclusive to a single group or shared among a subset of groups. We discuss the theoretical properties of the proposed and related models. Minor extensions of the proposed model for multivariate or count data are presented. Simulation studies and applications using real-world datasets illustrate the performance of the new models with comparison to existing models.

Polar slice sampling (Roberts & Rosenthal, 2002) is a Markov chain approach for approximate sampling of distributions that is difficult, if not impossible, to implement efficiently, but behaves provably well with respect to the dimension. By updating the directional and radial components of chain iterates separately, we obtain a family of samplers that mimic polar slice sampling, and yet can be implemented efficiently. Numerical experiments in a variety of settings indicate that our proposed algorithm outperforms the two most closely related approaches, elliptical slice sampling (Murray et al., 2010) and hit-and-run uniform slice sampling (MacKay, 2003). We prove the well-definedness and convergence of our methods under suitable assumptions on the target distribution.

Bayesian inference without the access of likelihood, called likelihood-free inference, is highlighted in simulation to yield a more realistic simulation result. Recent research updates an approximate posterior sequentially with the cumulative simulation input-output pairs over inference rounds. This paper observes that previous algorithms with Monte-Carlo Markov Chain present low accuracy for inference on a simulation with a multi-modal posterior due to the mode collapse of MCMC. From the observation, we propose an implicit sampling method, Implicit Surrogate Proposal (ISP), to draw balanced simulation inputs at each round. The resolution of mode collapse comes from two mechanisms: 1) a flexible surrogate proposal density estimator and 2) a parallel explored samples to train the surrogate density model. We demonstrate that ISP outperforms the baseline algorithms in multi-modal simulations.

Completely random measures provide a principled approach to creating flexible unsupervised models, where the number of latent features is infinite and the number of features that influence the data grows with the size of the data set. Due to the infinity the latent features, posterior inference requires either marginalization---resulting in dependence structures that prevent efficient computation via parallelization and conjugacy---or finite truncation, which arbitrarily limits the flexibility of the model. In this paper we present a novel Markov chain Monte Carlo algorithm for posterior inference that adaptively sets the truncation level using auxiliary slice variables, enabling efficient, parallelized computation without sacrificing flexibility. In contrast to past work that achieved this on a model-by-model basis, we provide a general recipe that is applicable to the broad class of completely random measure-based priors. The efficacy of the proposed algorithm is evaluated on several popular nonparametric models, demonstrating a higher effective sample size per second compared to algorithms using marginalization as well as a higher predictive performance compared to models employing fixed truncations.

Multiplex networks have become increasingly more prevalent in many fields, and have emerged as a powerful tool for modeling the complexity of real networks. There is a critical need for developing inference models for multiplex networks that can take into account potential dependencies across different layers, particularly when the aim is community detection. We add to a limited literature by proposing a novel and efficient Bayesian model for community detection in multiplex networks. A key feature of our approach is the ability to model varying communities at different network layers. In contrast, many existing models assume the same communities for all layers. Moreover, our model automatically picks up the necessary number of communities at each layer (as validated by real data examples). This is appealing, since deciding the number of communities is a challenging aspect of community detection, and especially so in the multiplex setting, if one allows the communities to change across layers. Borrowing ideas from hierarchical Bayesian modeling, we use a hierarchical Dirichlet prior to model community labels across layers, allowing dependency in their structure. Given the community labels, a stochastic block model (SBM) is assumed for each layer. We develop an efficient slice sampler for sampling the posterior distribution of the community labels as well as the link probabilities between communities. In doing so, we address some unique challenges posed by coupling the complex likelihood of SBM with the hierarchical nature of the prior on the labels. An extensive empirical validation is performed on simulated and real data, demonstrating the superior performance of the model over single-layer alternatives, as well as the ability to uncover interesting structures in real networks.

We propose an exact slice sampler for Hierarchical Dirichlet process (HDP) and its associated mixture models (Teh et al., 2006). Although there are existing MCMC algorithms for sampling from the HDP, a slice sampler has been missing from the literature. Slice sampling is well-known for its desirable properties including its fast mixing and its natural potential for parallelization. On the other hand, the hierarchical nature of HDPs poses challenges to adopting a full-fledged slice sampler that automatically truncates all the infinite measures involved without ad-hoc modifications. In this work, we adopt the powerful idea of Bayesian variable augmentation to address this challenge. By introducing new latent variables, we obtain a full factorization of the joint distribution that is suitable for slice sampling. Our algorithm has several appealing features such as (1) fast mixing; (2) remaining exact while allowing natural truncation of the underlying infinite-dimensional measures, as in (Kalli et al., 2011), resulting in updates of only a finite number of necessary atoms and weights in each iteration; and (3) being naturally suited to parallel implementations. The underlying principle for joint factorization of the full likelihood is simple and can be applied to many other settings, such as designing sampling algorithms for general dependent Dirichlet process (DDP) models.

This paper develops a computationally efficient posterior sampling algorithm for Bayesian linear regression models with Gaussian errors. Our new approach is motivated by the fact that existing software implementations for Bayesian linear regression do not readily handle problems with large number of observations (hundreds of thousands) and predictors (thousands). Moreover, existing sampling algorithms for popular shrinkage priors are bespoke Gibbs samplers based on case-specific latent variable representations. By contrast, the new algorithm does not rely on case-specific auxiliary variable representations, which allows for rapid prototyping of novel shrinkage priors outside the conditionally Gaussian framework. Specifically, we propose a slice-within-Gibbs sampler based on the elliptical slice sampler of Murray et al. [2010].