Autoregressive feedback is considered a necessity for successful unconditional text generation using stochastic sequence models. However, such feedback is known to introduce systematic biases into the training process and it obscures a principle of generation: committing to global information and forgetting local nuances. We show that a non-autoregressive deep state space model with a clear separation of global and local uncertainty can be built from only two ingredients: An independent noise source and a deterministic transition function. Recent advances on flow-based variational inference can be used to train an evidence lower-bound without resorting to annealing, auxiliary losses or similar measures. The result is a highly interpretable generative model on par with comparable auto-regressive models on the task of word generation.

Parameterizing the approximate posterior of a generative model with neural networks has become a common theme in recent machine learning research. While providing appealing flexibility, this approach makes it difficult to impose or assess structural constraints such as conditional independence. We propose a framework for learning representations that relies on Auto-Encoding Variational Bayes and whose search space is constrained via kernel-based measures of independence. In particular, our method employs the $d$-variable Hilbert-Schmidt Independence Criterion (dHSIC) to enforce independence between the latent representations and arbitrary nuisance factors. We show how to apply this method to a range of problems, including the problems of learning invariant representations and the learning of interpretable representations. We also present a full-fledged application to single-cell RNA sequencing (scRNA-seq). In this setting the biological signal in mixed in complex ways with sequencing errors and sampling effects. We show that our method out-performs the state-of-the-art in this domain.

Hamiltonian Monte Carlo (HMC) is a widely deployed method to sample from high-dimensional distributions in Statistics and Machine learning. HMC is known to run very efficiently in practice and its popular second-order ``leapfrog" implementation has long been conjectured to run in $d^{1/4}$ gradient evaluations. Here we show that this conjecture is true when sampling from strongly log-concave target distributions that satisfy a weak third-order regularity property associated with the input data. Our regularity condition is weaker than the Lipschitz Hessian property and allows us to show faster convergence bounds for a much larger class of distributions than would be possible with the usual Lipschitz Hessian constant alone. Important distributions that satisfy our regularity condition include posterior distributions used in Bayesian logistic regression for which the data satisfies an ``incoherence" property. Our result compares favorably with the best available bounds for the class of strongly log-concave distributions, which grow like $d^{{1}/{2}}$ gradient evaluations with the dimension. Moreover, our simulations on synthetic data suggest that, when our regularity condition is satisfied, leapfrog HMC performs better than its competitors -- both in terms of accuracy and in terms of the number of gradient evaluations it requires.

Bayesian optimization is a powerful tool for global optimization of expensive functions. One of its key components is the underlying probabilistic model used for the objective function f. In practice, however, it is often unclear how one should appropriately choose a model, especially when gathering data is expensive. In this work, we introduce a novel automated Bayesian optimization approach that dynamically selects promising models for explaining the observed data using Bayesian Optimization in the model space. Crucially, we account for the uncertainty in the choice of model; our method is capable of using multiple models to represent its current belief about f and subsequently using this information for decision making. We argue, and demonstrate empirically, that our approach automatically finds suitable models for the objective function, which ultimately results in more-efficient optimization.

This paper focusses on the formulation of numerical integration as an inferential task. To date, research effort has largely focussed on the development of Bayesian cubature, whose distributional output provides uncertainty quantification for the integral. However, the point estimators associated to Bayesian cubature can be inaccurate and acutely sensitive to the prior when the domain is high-dimensional. To address these drawbacks we introduce Bayes-Sard cubature, a probabilistic framework that combines the flexibility of Bayesian cubature with the robustness of classical cubatures which are well-established. This is achieved by considering a Gaussian process model for the integrand whose mean is a parametric regression model, with an improper prior on each regression coefficient. The features in the regression model consist of test functions which are guaranteed to be exactly integrated, with remaining degrees of freedom afforded to the non-parametric part. The asymptotic convergence of the Bayes-Sard cubature method is established and the theoretical results are numerically verified. In particular, we report two orders of magnitude reduction in error compared to Bayesian cubature in the context of a high-dimensional financial integral.

It is important to learn various types of classifiers given training data with noisy labels. Noisy labels, in the most popular noise model hitherto, are corrupted from ground-truth labels by an unknown noise transition matrix. Thus, by estimating this matrix, classifiers can escape from overfitting those noisy labels. However, such estimation is practically difficult, due to either the indirect nature of two-step approaches, or not big enough data to afford end-to-end approaches. In this paper, we propose a human-assisted approach called ''Masking'' that conveys human cognition of invalid class transitions and naturally speculates the structure of the noise transition matrix. To this end, we derive a structure-aware probabilistic model incorporating a structure prior, and solve the challenges from structure extraction and structure alignment. Thanks to Masking, we only estimate unmasked noise transition probabilities and the burden of estimation is tremendously reduced. We conduct extensive experiments on CIFAR-10 and CIFAR-100 with three noise structures as well as the industrial-level Clothing1M with agnostic noise structure, and the results show that Masking can improve the robustness of classifiers significantly.

Both resources in the natural environment and concepts in a semantic space are distributed "patchily", with large gaps in between the patches. To describe people's internal and external foraging behavior, various random walk models have been proposed. In particular, internal foraging has been modeled as sampling: in order to gather relevant information for making a decision, people draw samples from a mental representation using random-walk algorithms such as Markov chain Monte Carlo (MCMC). However, two common empirical observations argue against people using simple sampling algorithms such as MCMC for internal foraging. First, the distance between samples is often best described by a Levy flight distribution: the probability of the distance between two successive locations follows a power-law on the distances. Second, humans and other animals produce long-range, slowly decaying autocorrelations characterized as 1/f-like fluctuations, instead of the 1/f^2 fluctuations produced by random walks. We propose that mental sampling is not done by simple MCMC, but is instead adapted to multimodal representations and is implemented by Metropolis-coupled Markov chain Monte Carlo (MC3), one of the first algorithms developed for sampling from multimodal distributions. MC3 involves running multiple Markov chains in parallel but with target distributions of different temperatures, and it swaps the states of the chains whenever a better location is found. Heated chains more readily traverse valleys in the probability landscape to propose moves to far-away peaks, while the colder chains make the local steps that explore the current peak or patch. We show that MC3 generates distances between successive samples that follow a Levy flight distribution and produce 1/f-like autocorrelations, providing a single mechanistic account of these two puzzling empirical phenomena of internal foraging.

We present a new algorithm for stochastic variational inference that targets at models with non-differentiable densities. One of the key challenges in stochastic variational inference is to come up with a low-variance estimator of the gradient of a variational objective. We tackle the challenge by generalizing the reparameterization trick, one of the most effective techniques for addressing the variance issue for differentiable models, so that the trick works for non-differentiable models as well. Our algorithm splits the space of latent variables into regions where the density of the variables is differentiable, and their boundaries where the density may fail to be differentiable. For each differentiable region, the algorithm applies the standard reparameterization trick and estimates the gradient restricted to the region. For each potentially non-differentiable boundary, it uses a form of manifold sampling and computes the direction for variational parameters that, if followed, would increase the boundary’s contribution to the variational objective. The sum of all the estimates becomes the gradient estimate of our algorithm. Our estimator enjoys the reduced variance of the reparameterization gradient while remaining unbiased even for non-differentiable models. The experiments with our preliminary implementation confirm the benefit of reduced variance and unbiasedness.

Incentive mechanisms for crowdsourcing are designed to incentivize financially self-interested workers to generate and report high-quality labels. Existing mechanisms are often developed as one-shot static solutions, assuming a certain level of knowledge about worker models (expertise levels, costs for exerting efforts, etc.). In this paper, we propose a novel inference aided reinforcement mechanism that acquires data sequentially and requires no such prior assumptions. Specifically, we first design a Gibbs sampling augmented Bayesian inference algorithm to estimate workers' labeling strategies from the collected labels at each step. Then we propose a reinforcement incentive learning (RIL) method, building on top of the above estimates, to uncover how workers respond to different payments. RIL dynamically determines the payment without accessing any ground-truth labels. We theoretically prove that RIL is able to incentivize rational workers to provide high-quality labels both at each step and in the long run. Empirical results show that our mechanism performs consistently well under both rational and non-fully rational (adaptive learning) worker models. Besides, the payments offered by RIL are more robust and have lower variances compared to existing one-shot mechanisms.

The most widely used technology to identify the proteins present in a complex biological sample is tandem mass spectrometry, which quickly produces a large collection of spectra representative of the peptides (i.e., protein subsequences) present in the original sample. In this work, we greatly expand the parameter learning capabilities of a dynamic Bayesian network (DBN) peptide-scoring algorithm, Didea[25], by deriving emission distributions for which its conditional log-likelihood scoring function remains concave. We show that this class of emission distributions,called Convex Virtual Emissions (CVEs), naturally generalizes the log-sum-exp function while rendering both maximum likelihood estimation and conditional maximum likelihood estimation concave for a wide range of Bayesian networks. Utilizing CVEs in Didea allows efficient learning of a large number of parameters while ensuring global convergence, in stark contrast to Didea's previous parameter learning framework (which could only learn a single parameter using a costly grid search) and other trainable models [12, 13, 14] (which only ensure convergence to local optima). The newly trained scoring function substantially outperforms the state-of-the-art in both scoring function accuracy and downstream Fisher kernel analysis. Furthermore, we significantly improve Didea's runtime performance through successive optimizations to its message passing schedule and derive explicit connections between Didea's new concave score and related MS/MS scoring functions.