Bayesian inference in state-space models is challenging due to high-dimensional state trajectories. A viable approach is particle Markov chain Monte Carlo (PMCMC), combining MCMC and sequential Monte Carlo to form ``exact approximations'' to otherwise-intractable MCMC methods. The performance of the approximation is limited to that of the exact method. We focus on particle Gibbs (PG) and particle Gibbs with ancestor sampling (PGAS), improving their performance beyond that of the ideal Gibbs sampler (which they approximate) by marginalizing out one or more parameters. This is possible when the parameter(s) has a conjugate prior relationship with the complete data likelihood. Marginalization yields a non-Markov model for inference, but we show that, in contrast to the general case, the methods still scale linearly in time. While marginalization can be cumbersome to implement, recent advances in probabilistic programming have enabled its automation. We demonstrate how the marginalized methods are viable as efficient inference backends in probabilistic programming, and demonstrate with examples in ecology and epidemiology.

Normalizing flows are invertible neural networks with tractable change-of-volume terms, which allow optimization of their parameters to be efficiently performed via maximum likelihood. However, data of interest are typically assumed to live in some (often unknown) low-dimensional manifold embedded in a high-dimensional ambient space. The result is a modelling mismatch since -- by construction -- the invertibility requirement implies high-dimensional support of the learned distribution. Injective flows, mappings from low-to high-dimensional spaces, aim to fix this discrepancy by learning distributions on manifolds, but the resulting volume-change term becomes more challenging to evaluate. Current approaches either avoid computing this term entirely using various heuristics, or assume the manifold is known beforehand and therefore are not widely applicable. Instead, we propose two methods to tractably calculate the gradient of this term with respect to the parameters of the model, relying on careful use of automatic differentiation and techniques from numerical linear algebra. Both approaches perform end-to-end nonlinear manifold learning and density estimation for data projected onto this manifold. We study the trade-offs between our proposed methods, empirically verify that we outperform approaches ignoring the volume-change term by more accurately learning manifolds and the corresponding distributions on them, and show promising results on out-of-distribution detection.

Modern CNN-based object detectors assign anchors for ground-truth objects under the restriction of object-anchor Intersection-over-Unit (IoU). In this study, we propose a learning-to-match approach to break IoU restriction, allowing objects to match anchors in a flexible manner. Our approach, referred to as FreeAnchor, updates hand-crafted anchor assignment to free anchor matching by formulating detector training as a maximum likelihood estimation (MLE) procedure. FreeAnchor targets at learning features which best explain a class of objects in terms of both classification and localization. FreeAnchor is implemented by optimizing detection customized likelihood and can be fused with CNN-based detectors in a plug-and-play manner. Experiments on MS-COCO demonstrate that FreeAnchor consistently outperforms the counterparts with significant margins.

An increasing body of research focuses on using neural networks to model time series. A common assumption in training neural networks via maximum likelihood estimation on time series is that the errors across time steps are uncorrelated. However, errors are actually autocorrelated in many cases due to the temporality of the data, which makes such maximum likelihood estimations inaccurate. In this paper, in order to adjust for autocorrelated errors, we propose to learn the autocorrelation coefficient jointly with the model parameters. In our experiments, we verify the effectiveness of our approach on time series forecasting. Results across a wide range of real-world datasets with various state-of-the-art models show that our method enhances performance in almost all cases. Based on these results, we suggest empirical critical values to determine the severity of autocorrelated errors. We also analyze several aspects of our method to demonstrate its advantages. Finally, other time series tasks are also considered to validate that our method is not restricted to only forecasting.

Inference, estimation, sampling and likelihood evaluation are four primary goals of probabilistic modeling. Practical considerations often force modeling approaches to make compromises between these objectives. We present a novel probabilistic learning framework, called Fenchel Mini-Max Learning (FML), that accommodates all four desiderata in a flexible and scalable manner. Our derivation is rooted in classical maximum likelihood estimation, and it overcomes a longstanding challenge that prevents unbiased estimation of unnormalized statistical models. By reformulating MLE as a mini-max game, FML enjoys an unbiased training objective that (i) does not explicitly involve the intractable normalizing constant and (ii) is directly amendable to stochastic gradient descent optimization. To demonstrate the utility of the proposed approach, we consider learning unnormalized statistical models, nonparametric density estimation and training generative models, with encouraging empirical results presented.

Learning to accurately represent environmental uncertainty is crucial for adaptive and optimal behaviors in various cognitive tasks. However, it remains unclear how the human brain, constrained by finite cognitive resources, constructs an internal model from an infinite space of probability distributions. In this study, we explore how these learned distributions deviate from the ground truth, resulting in observable inconsistency in a novel structured density estimation task. During each trial, human participants were asked to form and report the latent probability distribution functions underlying sequentially presented independent observations. As the number of observations increased, the reported predictive density became closer to the ground truth. Nevertheless, we observed an intriguing inconsistency in human structure estimation, specifically a large error in the number of reported clusters.

We design a predictive layer for structured-output prediction (SOP) that can be plugged into any neural network guaranteeing its predictions are consistent with a set of predefined symbolic constraints. Our Semantic Probabilistic Layer (SPL) can model intricate correlations, and hard constraints, over a structured output space all while being amenable to end-to-end learning via maximum likelihood.SPLs combine exact probabilistic inference with logical reasoning in a clean and modular way, learning complex distributions and restricting their support to solutions of the constraint.

Generative probabilistic modeling of biological sequences has widespread existing and potential use across biology and biomedicine, particularly given advances in high-throughput sequencing, synthesis and editing. However, we still lack methods with nucleotide resolution that are tractable at the scale of whole genomes and that can achieve high predictive accuracy in theory and practice. In this article we propose a new generative sequence model, the Bayesian embedded autoregressive (BEAR) model, which uses a parametric autoregressive model to specify a conjugate prior over a nonparametric Bayesian Markov model. We explore, theoretically and empirically, applications of BEAR models to a variety of statistical problems including density estimation, robust parameter estimation, goodness-of-fit tests, and two-sample tests. We prove rigorous asymptotic consistency results including nonparametric posterior concentration rates.

Modeling the probability distribution of rows in tabular data and generating realistic synthetic data is a non-trivial task. Tabular data usually contains a mix of discrete and continuous columns. Continuous columns may have multiple modes whereas discrete columns are sometimes imbalanced making the modeling difficult. Existing statistical and deep neural network models fail to properly model this type of data. We design CTGAN, which uses a conditional generative adversarial network to address these challenges. To aid in a fair and thorough comparison, we design a benchmark with 7 simulated and 8 real datasets and several Bayesian network baselines. CTGAN outperforms Bayesian methods on most of the real datasets whereas other deep learning methods could not.

Cross-modal Retrieval methods build similarity relations between vision and language modalities by jointly learning a common representation space. However, the predictions are often unreliable due to the Aleatoric uncertainty, which is induced by low-quality data, e.g., corrupt images, fast-paced videos, and non-detailed texts. In this paper, we propose a novel Prototype-based Aleatoric Uncertainty Quantification (PAU) framework to provide trustworthy predictions by quantifying the uncertainty arisen from the inherent data ambiguity. Concretely, we first construct a set of various learnable prototypes for each modality to represent the entire semantics subspace. Then Dempster-Shafer Theory and Subjective Logic Theory are utilized to build an evidential theoretical framework by associating evidence with Dirichlet Distribution parameters. The PAU model induces accurate uncertainty and reliable predictions for cross-modal retrieval. Extensive experiments are performed on four major benchmark datasets of MSR-VTT, MSVD, DiDeMo, and MS-COCO, demonstrating the effectiveness of our method. The code is accessible at https://github.com/leolee99/PAU.