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It is common practice to use Laplace approximations to compute marginal likelihoods in Bayesian versions of generalised linear models (GLM). Marginal likelihoods combined with model priors are then used in different search algorithms to compute the posterior marginal probabilities of models and individual covariates. This allows performing Bayesian model selection and model averaging. For large sample sizes, even the Laplace approximation becomes computationally challenging because the optimisation routine involved needs to evaluate the likelihood on the full set of data in multiple iterations. As a consequence, the algorithm is not scalable for large datasets. To address this problem, we suggest using a version of a popular batch stochastic gradient descent (BSGD) algorithm for estimating the marginal likelihood of a GLM by subsampling from the data. We further combine the algorithm with Markov chain Monte Carlo (MCMC) based methods for Bayesian model selection and provide some theoretical results on the convergence of the estimates. Finally, we report results from experiments illustrating the performance of the proposed algorithm.

This paper provides a unified perspective for the Kullback-Leibler (KL)-divergence and the integral probability metrics (IPMs) from the perspective of maximum likelihood density-ratio estimation (DRE). Both the KL-divergence and the IPMs are widely used in various fields in applications such as generative modeling. However, a unified understanding of these concepts has still been unexplored. In this paper, we show that the KL-divergence and the IPMs can be represented as maximal likelihoods differing only by sampling schemes, and use this result to derive a unified form of the IPMs and a relaxed estimation method. To develop the estimation problem, we construct an unconstrained maximum likelihood estimator to perform DRE with a stratified sampling scheme. We further propose a novel class of probability divergences, called the Density Ratio Metrics (DRMs), that interpolates the KL-divergence and the IPMs. In addition to these findings, we also introduce some applications of the DRMs, such as DRE and generative adversarial networks. In experiments, we validate the effectiveness of our proposed methods.

Population adjustment methods such as matching-adjusted indirect comparison (MAIC) are increasingly used to compare marginal treatment effects when there are cross-trial differences in effect modifiers and limited patient-level data. MAIC is based on propensity score weighting, which is sensitive to poor covariate overlap and cannot extrapolate beyond the observed covariate space. Current outcome regression-based alternatives can extrapolate but target a conditional treatment effect that is incompatible in the indirect comparison. When adjusting for covariates, one must integrate or average the conditional estimate over the relevant population to recover a compatible marginal treatment effect. We propose a marginalization method based on parametric G-computation that can be easily applied where the outcome regression is a generalized linear model or a Cox model. The approach views the covariate adjustment regression as a nuisance model and separates its estimation from the evaluation of the marginal treatment effect of interest. The method can accommodate a Bayesian statistical framework, which naturally integrates the analysis into a probabilistic framework. A simulation study provides proof-of-principle and benchmarks the method's performance against MAIC and the conventional outcome regression. Parametric G-computation achieves more precise and more accurate estimates than MAIC, particularly when covariate overlap is poor, and yields unbiased marginal treatment effect estimates under no failures of assumptions. Furthermore, the marginalized regression-adjusted estimates provide greater precision and accuracy than the conditional estimates produced by the conventional outcome regression, which are systematically biased because the measure of effect is non-collapsible.

Zero-free based algorithm is a major technique for deterministic approximate counting. In Barvinok's original framework[Bar17], by calculating truncated Taylor expansions, a quasi-polynomial time algorithm was given for estimating zero-free partition functions. Patel and Regts[PR17] later gave a refinement of Barvinok's framework, which gave a polynomial-time algorithm for a class of zero-free graph polynomials that can be expressed as counting induced subgraphs in bounded-degree graphs. In this paper, we give a polynomial-time algorithm for estimating classical and quantum partition functions specified by local Hamiltonians with bounded maximum degree, assuming a zero-free property for the temperature. Consequently, when the inverse temperature is close enough to zero by a constant gap, we have polynomial-time approximation algorithm for all such partition functions. Our result is based on a new abstract framework that extends and generalizes the approach of Patel and Regts.

Optimum parameter estimation methods require knowledge of a parametric probability density that statistically describes the available observations. In this work we examine Bayesian and non-Bayesian parameter estimation problems under a data-driven formulation where the necessary parametric probability density is replaced by available data. We present various data-driven versions that either result in neural network approximations of the optimum estimators or in well defined optimization problems that can be solved numerically. In particular, for the data-driven equivalent of non-Bayesian estimation we end up with optimization problems similar to the ones encountered for the design of generative networks.

Posterior contractions rates (PCRs) strengthen the notion of Bayesian consistency, quantifying the speed at which the posterior distribution concentrates on arbitrarily small neighborhoods of the true model, with probability tending to 1 or almost surely, as the sample size goes to infinity. Under the Bayesian nonparametric framework, a common assumption in the study of PCRs is that the model is dominated for the observations; that is, it is assumed that the posterior can be written through the Bayes formula. In this paper, we consider the problem of establishing PCRs in Bayesian nonparametric models where the posterior distribution is not available through the Bayes formula, and hence models that are non-dominated for the observations. By means of the Wasserstein distance and a suitable sieve construction, our main result establishes PCRs in Bayesian nonparametric models where the posterior is available through a more general disintegration than the Bayes formula. To the best of our knowledge, this is the first general approach to provide PCRs in non-dominated Bayesian nonparametric models, and it relies on minimal modeling assumptions and on a suitable continuity assumption for the posterior distribution. Some refinements of our result are presented under additional assumptions on the prior distribution, and applications are given with respect to the Dirichlet process prior and the normalized extended Gamma process prior.

Approximate Bayesian computation (ABC) is a popular likelihood-free inference method for models with intractable likelihood functions. As ABC methods usually rely on comparing summary statistics of observed and simulated data, the choice of the statistics is crucial. This choice involves a trade-off between loss of information and dimensionality reduction, and is often determined based on domain knowledge. However, handcrafting and selecting suitable statistics is a laborious task involving multiple trial-and-error steps. In this work, we introduce an active learning method for ABC statistics selection which reduces the domain expert's work considerably. By involving the experts, we are able to handle misspecified models, unlike the existing dimension reduction methods. Moreover, empirical results show better posterior estimates than with existing methods, when the simulation budget is limited.

Recently, conditional average treatment effect (CATE) estimation has been attracting much attention due to its importance in various fields such as statistics, social and biomedical sciences. This study proposes a partially linear nonparametric Bayes model for the heterogeneous treatment effect estimation. A partially linear model is a semiparametric model that consists of linear and nonparametric components in an additive form. A nonparametric Bayes model that uses a Gaussian process to model the nonparametric component has already been studied. However, this model cannot handle the heterogeneity of the treatment effect. In our proposed model, not only the nonparametric component of the model but also the heterogeneous treatment effect of the treatment variable is modeled by a Gaussian process prior. We derive the analytic form of the posterior distribution of the CATE and prove that the posterior has the consistency property. That is, it concentrates around the true distribution. We show the effectiveness of the proposed method through numerical experiments based on synthetic data.

One of the main features of interest in analysing the light curves of stars is the underlying periodic behaviour. The corresponding observations are a complex type of time series with unequally spaced time points and are sometimes accompanied by varying measures of accuracy. The main tools for analysing these type of data rely on the periodogram-like functions, constructed with a desired feature so that the peaks indicate the presence of a potential period. In this paper, we explore a particular periodogram for the irregularly observed time series data, similar to Thieler et. al. (2013). We identify the potential periods at the appropriate peaks and more importantly with a quantifiable uncertainty. Our approach is shown to easily generalise to non-parametric methods including a weighted Gaussian process regression periodogram. We also extend this approach to correlated background noise. The proposed method for period detection relies on a test based on quadratic forms with normally distributed components. We implement the saddlepoint approximation, as a faster and more accurate alternative to the simulation-based methods that are currently used. The power analysis of the testing methodology is reported together with applications using light curves from the Hunting Outbursting Young Stars citizen science project.

Discrete random structures are important tools in Bayesian nonparametrics and the resulting models have proven effective in density estimation, clustering, topic modeling and prediction, among others. In this paper, we consider nested processes and study the dependence structures they induce. Dependence ranges between homogeneity, corresponding to full exchangeability, and maximum heterogeneity, corresponding to (unconditional) independence across samples. The popular nested Dirichlet process is shown to degenerate to the fully exchangeable case when there are ties across samples at the observed or latent level. To overcome this drawback, inherent to nesting general discrete random measures, we introduce a novel class of latent nested processes. These are obtained by adding common and group-specific completely random measures and, then, normalising to yield dependent random probability measures. We provide results on the partition distributions induced by latent nested processes, and develop an Markov Chain Monte Carlo sampler for Bayesian inferences. A test for distributional homogeneity across groups is obtained as a by product. The results and their inferential implications are showcased on synthetic and real data.