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 Learning Graphical Models


Maximize to Explore: One Objective Function Fusing Estimation, Planning, and Exploration

arXiv.org Machine Learning

In online reinforcement learning (online RL), balancing exploration and exploitation is crucial for finding an optimal policy in a sample-efficient way. To achieve this, existing sample-efficient online RL algorithms typically consist of three components: estimation, planning, and exploration. However, in order to cope with general function approximators, most of them involve impractical algorithmic components to incentivize exploration, such as optimization within data-dependent level-sets or complicated sampling procedures. To address this challenge, we propose an easy-to-implement RL framework called \textit{Maximize to Explore} (\texttt{MEX}), which only needs to optimize \emph{unconstrainedly} a single objective that integrates the estimation and planning components while balancing exploration and exploitation automatically. Theoretically, we prove that \texttt{MEX} achieves a sublinear regret with general function approximations for Markov decision processes (MDP) and is further extendable to two-player zero-sum Markov games (MG). Meanwhile, we adapt deep RL baselines to design practical versions of \texttt{MEX}, in both model-free and model-based manners, which can outperform baselines by a stable margin in various MuJoCo environments with sparse rewards. Compared with existing sample-efficient online RL algorithms with general function approximations, \texttt{MEX} achieves similar sample efficiency while enjoying a lower computational cost and is more compatible with modern deep RL methods.


Monte Carlo guided Diffusion for Bayesian linear inverse problems

arXiv.org Machine Learning

Ill-posed linear inverse problems arise frequently in various applications, from computational photography to medical imaging. A recent line of research exploits Bayesian inference with informative priors to handle the ill-posedness of such problems. Amongst such priors, score-based generative models (SGM) have recently been successfully applied to several different inverse problems. In this study, we exploit the particular structure of the prior defined by the SGM to define a sequence of intermediate linear inverse problems. As the noise level decreases, the posteriors of these inverse problems get closer to the target posterior of the original inverse problem. To sample from this sequence of posteriors, we propose the use of Sequential Monte Carlo (SMC) methods. The proposed algorithm, MCGDiff, is shown to be theoretically grounded and we provide numerical simulations showing that it outperforms competing baselines when dealing with ill-posed inverse problems in a Bayesian setting.


Causal Discovery with Generalized Linear Models through Peeling Algorithms

arXiv.org Machine Learning

This article presents a novel method for causal discovery with generalized structural equation models suited for analyzing diverse types of outcomes, including discrete, continuous, and mixed data. Causal discovery often faces challenges due to unmeasured confounders that hinder the identification of causal relationships. The proposed approach addresses this issue by developing two peeling algorithms (bottom-up and top-down) to ascertain causal relationships and valid instruments. This approach first reconstructs a super-graph to represent ancestral relationships between variables, using a peeling algorithm based on nodewise GLM regressions that exploit relationships between primary and instrumental variables. Then, it estimates parent-child effects from the ancestral relationships using another peeling algorithm while deconfounding a child's model with information borrowed from its parents' models. The article offers a theoretical analysis of the proposed approach, which establishes conditions for model identifiability and provides statistical guarantees for accurately discovering parent-child relationships via the peeling algorithms. Furthermore, the article presents numerical experiments showcasing the effectiveness of our approach in comparison to state-of-the-art structure learning methods without confounders. Lastly, it demonstrates an application to Alzheimer's disease (AD), highlighting the utility of the method in constructing gene-to-gene and gene-to-disease regulatory networks involving Single Nucleotide Polymorphisms (SNPs) for healthy and AD subjects.


Local Discovery by Partitioning: Polynomial-Time Causal Discovery Around Exposure-Outcome Pairs

arXiv.org Machine Learning

This work addresses the problem of automated covariate selection under limited prior knowledge. Given an exposure-outcome pair {X,Y} and a variable set Z of unknown causal structure, the Local Discovery by Partitioning (LDP) algorithm partitions Z into subsets defined by their relation to {X,Y}. We enumerate eight exhaustive and mutually exclusive partitions of any arbitrary Z and leverage this taxonomy to differentiate confounders from other variable types. LDP is motivated by valid adjustment set identification, but avoids the pretreatment assumption commonly made by automated covariate selection methods. We provide theoretical guarantees that LDP returns a valid adjustment set for any Z that meets sufficient graphical conditions. Under stronger conditions, we prove that partition labels are asymptotically correct. Total independence tests is worst-case quadratic in |Z|, with sub-quadratic runtimes observed empirically. We numerically validate our theoretical guarantees on synthetic and semi-synthetic graphs. Adjustment sets from LDP yield less biased and more precise average treatment effect estimates than baselines, with LDP outperforming on confounder recall, test count, and runtime for valid adjustment set discovery.


Coreset Markov Chain Monte Carlo

arXiv.org Machine Learning

A Bayesian coreset is a small, weighted subset of data that replaces the full dataset during inference in order to reduce computational cost. However, state of the art methods for tuning coreset weights are expensive, require nontrivial user input, and impose constraints on the model. In this work, we propose a new method -- Coreset MCMC -- that simulates a Markov chain targeting the coreset posterior, while simultaneously updating the coreset weights using those same draws. Coreset MCMC is simple to implement and tune, and can be used with any existing MCMC kernel. We analyze Coreset MCMC in a representative setting to obtain key insights about the convergence behaviour of the method. Empirical results demonstrate that Coreset MCMC provides higher quality posterior approximations and reduced computational cost compared with other coreset construction methods. Further, compared with other general subsampling MCMC methods, we find that Coreset MCMC has a higher sampling efficiency with competitively accurate posterior approximations.


Efficient Neural Network Approaches for Conditional Optimal Transport with Applications in Bayesian Inference

arXiv.org Machine Learning

Both approaches enable sampling and density estimation of conditional probability distributions, which are core tasks in Bayesian inference. Our methods represent the target conditional distributions as transformations of a tractable reference distribution and, therefore, fall into the framework of measure transport. COT maps are a canonical choice within this framework, with desirable properties such as uniqueness and monotonicity. However, the associated COT problems are computationally challenging, even in moderate dimensions. To improve the scalability, our numerical algorithms leverage neural networks to parameterize COT maps. Our methods exploit the structure of the static and dynamic formulations of the COT problem. PCP-Map models conditional transport maps as the gradient of a partially input convex neural network (PICNN) and uses a novel numerical implementation to increase computational efficiency compared to state-of-the-art alternatives. COT-Flow models conditional transports via the flow of a regularized neural ODE; it is slower to train but offers faster sampling. We demonstrate their effectiveness and efficiency by comparing them with state-of-the-art approaches using benchmark datasets and Bayesian inverse problems.


A Mean Field Approach to Empirical Bayes Estimation in High-dimensional Linear Regression

arXiv.org Machine Learning

We study empirical Bayes estimation in high-dimensional linear regression. To facilitate computationally efficient estimation of the underlying prior, we adopt a variational empirical Bayes approach, introduced originally in Carbonetto and Stephens (2012) and Kim et al. (2022). We establish asymptotic consistency of the nonparametric maximum likelihood estimator (NPMLE) and its (computable) naive mean field variational surrogate under mild assumptions on the design and the prior. Assuming, in addition, that the naive mean field approximation has a dominant optimizer, we develop a computationally efficient approximation to the oracle posterior distribution, and establish its accuracy under the 1-Wasserstein metric. This enables computationally feasible Bayesian inference; e.g., construction of posterior credible intervals with an average coverage guarantee, Bayes optimal estimation for the regression coefficients, estimation of the proportion of non-nulls, etc. Our analysis covers both deterministic and random designs, and accommodates correlations among the features. To the best of our knowledge, this provides the first rigorous nonparametric empirical Bayes method in a high-dimensional regression setting without sparsity.


Cause-Effect Inference in Location-Scale Noise Models: Maximum Likelihood vs. Independence Testing

arXiv.org Machine Learning

A fundamental problem of causal discovery is cause-effect inference, learning the correct causal direction between two random variables. Significant progress has been made through modelling the effect as a function of its cause and a noise term, which allows us to leverage assumptions about the generating function class. The recently introduced heteroscedastic location-scale noise functional models (LSNMs) combine expressive power with identifiability guarantees. LSNM model selection based on maximizing likelihood achieves state-of-the-art accuracy, when the noise distributions are correctly specified. However, through an extensive empirical evaluation, we demonstrate that the accuracy deteriorates sharply when the form of the noise distribution is misspecified by the user. Our analysis shows that the failure occurs mainly when the conditional variance in the anti-causal direction is smaller than that in the causal direction. As an alternative, we find that causal model selection through residual independence testing is much more robust to noise misspecification and misleading conditional variance.


Discrete Diffusion Language Modeling by Estimating the Ratios of the Data Distribution

arXiv.org Machine Learning

Despite their groundbreaking performance for many generative modeling tasks, diffusion models have fallen short on discrete data domains such as natural language. Crucially, standard diffusion models rely on the well-established theory of score matching, but efforts to generalize this to discrete structures have not yielded the same empirical gains. In this work, we bridge this gap by proposing score entropy, a novel discrete score matching loss that is more stable than existing methods, forms an ELBO for maximum likelihood training, and can be efficiently optimized with a denoising variant. We scale our Score Entropy Discrete Diffusion models (SEDD) to the experimental setting of GPT-2, achieving highly competitive likelihoods while also introducing distinct algorithmic advantages. In particular, when comparing similarly sized SEDD and GPT-2 models, SEDD attains comparable perplexities (normally within $+10\%$ of and sometimes outperforming the baseline). Furthermore, SEDD models learn a more faithful sequence distribution (around $4\times$ better compared to GPT-2 models with ancestral sampling as measured by large models), can trade off compute for generation quality (needing only $16\times$ fewer network evaluations to match GPT-2), and enables arbitrary infilling beyond the standard left to right prompting.


Adaptive importance sampling for heavy-tailed distributions via $\alpha$-divergence minimization

arXiv.org Machine Learning

Adaptive importance sampling (AIS) algorithms are widely used to approximate expectations with respect to complicated target probability distributions. When the target has heavy tails, existing AIS algorithms can provide inconsistent estimators or exhibit slow convergence, as they often neglect the target's tail behaviour. To avoid this pitfall, we propose an AIS algorithm that approximates the target by Student-t proposal distributions. We adapt location and scale parameters by matching the escort moments - which are defined even for heavy-tailed distributions - of the target and the proposal. These updates minimize the $\alpha$-divergence between the target and the proposal, thereby connecting with variational inference. We then show that the $\alpha$-divergence can be approximated by a generalized notion of effective sample size and leverage this new perspective to adapt the tail parameter with Bayesian optimization. We demonstrate the efficacy of our approach through applications to synthetic targets and a Bayesian Student-t regression task on a real example with clinical trial data.