Bayesian causal discovery aims to infer the posterior distribution over causal models from observed data, quantifying epistemic uncertainty and benefiting downstream tasks. However, computational challenges arise due to joint inference over combinatorial space of Directed Acyclic Graphs (DAGs) and nonlinear functions. Despite recent progress towards efficient posterior inference over DAGs, existing methods are either limited to variational inference on node permutation matrices for linear causal models, leading to compromised inference accuracy, or continuous relaxation of adjacency matrices constrained by a DAG regularizer, which cannot ensure resulting graphs are DAGs. In this work, we introduce a scalable Bayesian causal discovery framework based on a combination of stochastic gradient Markov Chain Monte Carlo (SG-MCMC) and Variational Inference (VI) that overcomes these limitations. Our approach directly samples DAGs from the posterior without requiring any DAG regularization, simultaneously draws function parameter samples and is applicable to both linear and nonlinear causal models. To enable our approach, we derive a novel equivalence to the permutation-based DAG learning, which opens up possibilities of using any relaxed gradient estimator defined over permutations. To our knowledge, this is the first framework applying gradient-based MCMC sampling for causal discovery. Empirical evaluation on synthetic and real-world datasets demonstrate our approach's effectiveness compared to state-of-the-art baselines.

Neural Information Processing Systems http://nips.cc/

Neural Information Processing Systems http://nips.cc/

Stochastic gradient MCMC (SG-MCMC) has played an important role in large-scale Bayesian learning, with well-developed theoretical convergence properties. In such applications of SG-MCMC, it is becoming increasingly popular to employ distributed systems, where stochastic gradients are computed based on some outdated parameters, yielding what are termed stale gradients. While stale gradients could be directly used in SG-MCMC, their impact on convergence properties has not been well studied. In this paper we develop theory to show that while the bias and MSE of an SG-MCMC algorithm depend on the staleness of stochastic gradients, its estimation variance (relative to the expected estimate, based on a prescribed number of samples) is independent of it. In a simple Bayesian distributed system with SG-MCMC, where stale gradients are computed asynchronously by a set of workers, our theory indicates a linear speedup on the decrease of estimation variance w.r.t. the number of workers.

Stochastic Gradient Markov Chain Monte Carlo (SG-MCMC) algorithms have become increasingly popular for Bayesian inference in large-scale applications. Even though these methods have proved useful in several scenarios, their performance is often limited by their bias. In this study, we propose a novel sampling algorithm that aims to reduce the bias of SG-MCMC while keeping the variance at a reasonable level. Our approach is based on a numerical sequence acceleration method, namely the Richardson-Romberg extrapolation, which simply boils down to running almost the same SG-MCMC algorithm twice in parallel with different step sizes. We illustrate our framework on the popular Stochastic Gradient Langevin Dynamics (SGLD) algorithm and propose a novel SG-MCMC algorithm referred to as Stochastic Gradient Richardson-Romberg Langevin Dynamics (SGRRLD). We provide formal theoretical analysis and show that SGRRLD is asymptotically consistent, satisfies a central limit theorem, and its non-asymptotic bias and the mean squared-error can be bounded. Our results show that SGRRLD attains higher rates of convergence than SGLD in both finite-time and asymptotically, and it achieves the theoretical accuracy of the methods that are based on higher-order integrators. We support our findings using both synthetic and real data experiments.

In this work, we introduce a scalable Bayesian causal discovery framework based on a combination of stochastic gradient Markov Chain Monte Carlo (SG-MCMC) and V ariational Inference (VI) that overcomes these limitations.

Stochastic gradient MCMC (SG-MCMC) has played an important role in large-scale Bayesian learning, with well-developed theoretical convergence properties. In such applications of SG-MCMC, it is becoming increasingly popular to employ distributed systems, where stochastic gradients are computed based on some outdated parameters, yielding what are termed stale gradients. While stale gradients could be directly used in SG-MCMC, their impact on convergence properties has not been well studied. In this paper we develop theory to show that while the bias and MSE of an SG-MCMC algorithm depend on the staleness of stochastic gradients, its estimation variance (relative to the expected estimate, based on a prescribed number of samples) is independent of it. In a simple Bayesian distributed system with SG-MCMC, where stale gradients are computed asynchronously by a set of workers, our theory indicates a linear speedup on the decrease of estimation variance w.r.t. the number of workers.

Stochastic Gradient Markov Chain Monte Carlo (SG-MCMC) algorithms have become increasingly popular for Bayesian inference in large-scale applications. Even though these methods have proved useful in several scenarios, their performance is often limited by their bias. In this study, we propose a novel sampling algorithm that aims to reduce the bias of SG-MCMC while keeping the variance at a reasonable level. Our approach is based on a numerical sequence acceleration method, namely the Richardson-Romberg extrapolation, which simply boils down to running almost the same SG-MCMC algorithm twice in parallel with different step sizes. We illustrate our framework on the popular Stochastic Gradient Langevin Dynamics (SGLD) algorithm and propose a novel SG-MCMC algorithm referred to as Stochastic Gradient Richardson-Romberg Langevin Dynamics (SGRRLD). We provide formal theoretical analysis and show that SGRRLD is asymptotically consistent, satisfies a central limit theorem, and its non-asymptotic bias and the mean squared-error can be bounded. Our results show that SGRRLD attains higher rates of convergence than SGLD in both finite-time and asymptotically, and it achieves the theoretical accuracy of the methods that are based on higher-order integrators. We support our findings using both synthetic and real data experiments.

Recent advances in Bayesian learning with large-scale data have witnessed emergence of stochastic gradient MCMC algorithms (SG-MCMC), such as stochastic gradient Langevin dynamics (SGLD), stochastic gradient Hamiltonian MCMC (SGHMC), and the stochastic gradient thermostat. While finite-time convergence properties of the SGLD with a 1st-order Euler integrator have recently been studied, corresponding theory for general SG-MCMCs has not been explored. In this paper we consider general SG-MCMCs with high-order integrators, and develop theory to analyze finite-time convergence properties and their asymptotic invariant measures. Our theoretical results show faster convergence rates and more accurate invariant measures for SG-MCMCs with higher-order integrators.

Technical quality: I think that the theory is very complete (bounds are given for pretty much everything relevant to the problem), and the experiments show that this method performs better on large/complicated models (the small/simple models have too little variance for extra servers to help, and the staleness prevents much benefits). I think the biggest limitation of the paper is the lack of comparison against the method in [14] (the paper mostly compares against the non-distributed -- 1 worker -- case, instead of a more standard distributed case). Novelty/originality: My impression is theoretical results are mostly a combination of proof techniques used in other SG-MCMC and asynchronous SGD papers (however, I'm not too sure that this claim is correct). Assuming this is true, I think the results are well-executed, but not too unique. Potential impact or usefulness: I think the theoretical analysis will be useful for people interested in how asynchrony affects SG-MCMC. However, I'm not too clear how much this will help for running SG-MCMC in practice.