Decoding sensory stimuli from neural signals can be used to reveal how we sense our physical environment, and is valuable for the design of brain-machine interfaces. However, existing linear techniques for neural decoding may not fully reveal or exploit the fidelity of the neural signal. Here we develop a new approximate Bayesian method for decoding natural images from the spiking activity of populations of retinal ganglion cells (RGCs). We sidestep known computational challenges with Bayesian inference by exploiting artificial neural networks developed for computer vision, enabling fast nonlinear decoding that incorporates natural scene statistics implicitly. We use a decoder architecture that first linearly reconstructs an image from RGC spikes, then applies a convolutional autoencoder to enhance the image. The resulting decoder, trained on natural images and simulated neural responses, significantly outperforms linear decoding, as well as simple point-wise nonlinear decoding. These results provide a tool for the assessment and optimization of retinal prosthesis technologies, and reveal that the retina may provide a more accurate representation of the visual scene than previously appreciated.

Mechanistic models of single-neuron dynamics have been extensively studied in computational neuroscience. However, identifying which models can quantitatively reproduce empirically measured data has been challenging. We propose to overcome this limitation by using likelihood-free inference approaches (also known as Approximate Bayesian Computation, ABC) to perform full Bayesian inference on single-neuron models. Our approach builds on recent advances in ABC by learning a neural network which maps features of the observed data to the posterior distribution over parameters. We learn a Bayesian mixture-density network approximating the posterior over multiple rounds of adaptively chosen simulations. Furthermore, we propose an efficient approach for handling missing features and parameter settings for which the simulator fails, as well as a strategy for automatically learning relevant features using recurrent neural networks. On synthetic data, our approach efficiently estimates posterior distributions and recovers ground-truth parameters. On in-vitro recordings of membrane voltages, we recover multivariate posteriors over biophysical parameters, which yield model-predicted voltage traces that accurately match empirical data. Our approach will enable neuroscientists to perform Bayesian inference on complex neuron models without having to design model-specific algorithms, closing the gap between mechanistic and statistical approaches to single-neuron modelling.

Approximate probabilistic inference algorithms are central to many fields. Examples include sequential Monte Carlo inference in robotics, variational inference in machine learning, and Markov chain Monte Carlo inference in statistics. A key problem faced by practitioners is measuring the accuracy of an approximate inference algorithm on a specific data set. This paper introduces the auxiliary inference divergence estimator (AIDE), an algorithm for measuring the accuracy of approximate inference algorithms. AIDE is based on the observation that inference algorithms can be treated as probabilistic models and the random variables used within the inference algorithm can be viewed as auxiliary variables. This view leads to a new estimator for the symmetric KL divergence between the approximating distributions of two inference algorithms. The paper illustrates application of AIDE to algorithms for inference in regression, hidden Markov, and Dirichlet process mixture models. The experiments show that AIDE captures the qualitative behavior of a broad class of inference algorithms and can detect failure modes of inference algorithms that are missed by standard heuristics.

Learning the directed acyclic graph (DAG) structure of a Bayesian network from observational data is a notoriously difficult problem for which many non-identifiability and hardness results are known. In this paper we propose a provably polynomial-time algorithm for learning sparse Gaussian Bayesian networks with equal noise variance --- a class of Bayesian networks for which the DAG structure can be uniquely identified from observational data --- under high-dimensional settings. We show that $O(k^4 \log p)$ number of samples suffices for our method to recover the true DAG structure with high probability, where $p$ is the number of variables and $k$ is the maximum Markov blanket size. We obtain our theoretical guarantees under a condition called \emph{restricted strong adjacency faithfulness} (RSAF), which is strictly weaker than strong faithfulness --- a condition that other methods based on conditional independence testing need for their success. The sample complexity of our method matches the information-theoretic limits in terms of the dependence on $p$.

Implicit probabilistic models are a flexible class of models defined by a simulation process for data. They form the basis for models which encompass our understanding of the physical word. Despite this fundamental nature, the use of implicit models remains limited due to challenge in positing complex latent structure in them, and the ability to inference in such models with large data sets. In this paper, we first introduce the hierarchical implicit models (HIMs). HIMs combine the idea of implicit densities with hierarchical Bayesian modeling thereby defining models via simulators of data with rich hidden structure. Next, we develop likelihood-free variational inference (LFVI), a scalable variational inference algorithm for HIMs. Key to LFVI is specifying a variational family that is also implicit. This matches the model's flexibility and allows for accurate approximation of the posterior. We demonstrate diverse applications: a large-scale physical simulator for predator-prey populations in ecology; a Bayesian generative adversarial network for discrete data; and a deep implicit model for symbol generation.

Generalized linear models (GLMs)---such as logistic regression, Poisson regression, and robust regression---provide interpretable models for diverse data types. Probabilistic approaches, particularly Bayesian ones, allow coherent estimates of uncertainty, incorporation of prior information, and sharing of power across experiments via hierarchical models. In practice, however, the approximate Bayesian methods necessary for inference have either failed to scale to large data sets or failed to provide theoretical guarantees on the quality of inference. We propose a new approach based on constructing polynomial approximate sufficient statistics for GLMs (PASS-GLM). We demonstrate that our method admits a simple algorithm as well as trivial streaming and distributed extensions that do not compound error across computations. We provide theoretical guarantees on the quality of point (MAP) estimates, the approximate posterior, and posterior mean and uncertainty estimates. We validate our approach empirically in the case of logistic regression using a quadratic approximation and show competitive performance with stochastic gradient descent, MCMC, and the Laplace approximation in terms of speed and multiple measures of accuracy---including on an advertising data set with 40 million data points and 20,000 covariates.

We present a novel training framework for neural sequence models, particularly for grounded dialog generation. The standard training paradigm for these models is maximum likelihood estimation (MLE), or minimizing the cross-entropy of the human responses. Across a variety of domains, a recurring problem with MLE trained generative neural dialog models (G) is that they tend to produce'safe' and generic responses like I don't know, I can't tell). In contrast, discriminative dialog models (D) that are trained to rank a list of candidate human responses outperform their generative counterparts; in terms of automatic metrics, diversity, and informativeness of the responses. However, D is not useful in practice since it can not be deployed to have real conversations with users. Our work aims to achieve the best of both worlds -- the practical usefulness of G and the strong performance of D -- via knowledge transfer from D to G. Our primary contribution is an end-to-end trainable generative visual dialog model, where G receives gradients from D as a perceptual (not adversarial) loss of the sequence sampled from G. We leverage the recently proposed Gumbel-Softmax (GS) approximation to the discrete distribution -- specifically, a RNN is augmented with a sequence of GS samplers, which coupled with the straight-through gradient estimator enables end-to-end differentiability. We also introduce a stronger encoder for visual dialog, and employ a self-attention mechanism for answer encoding along with a metric learning loss to aid D in better capturing semantic similarities in answer responses. Overall, our proposed model outperforms state-of-the-art on the VisDial dataset by a significant margin (2.67% on recall@10).

We investigate a subclass of exponential family graphical models of which the sufficient statistics are defined by arbitrary additive forms. We propose two $\ell_{2,1}$-norm regularized maximum likelihood estimators to learn the model parameters from i.i.d.

We consider log-supermodular models on binary variables, which are probabilistic models with negative log-densities which are submodular. These models provide probabilistic interpretations of common combinatorial optimization tasks such as image segmentation. In this paper, we focus primarily on parameter estimation in the models from known upper-bounds on the intractable log-partition function. We show that the bound based on separable optimization on the base polytope of the submodular function is always inferior to a bound based on ``perturb-and-MAP'' ideas. Then, to learn parameters, given that our approximation of the log-partition function is an expectation (over our own randomization), we use a stochastic subgradient technique to maximize a lower-bound on the log-likelihood. This can also be extended to conditional maximum likelihood. We illustrate our new results in a set of experiments in binary image denoising, where we highlight the flexibility of a probabilistic model to learn with missing data.

We propose a vector-valued regression problem whose solution is equivalent to the reproducing kernel Hilbert space (RKHS) embedding of the Bayesian posterior distribution. This equivalence provides a new understanding of kernel Bayesian inference. Moreover, the optimization problem induces a new regularization for the posterior embedding estimator, which is faster and has comparable performance to the squared regularization in kernel Bayes' rule. This regularization coincides with a former thresholding approach used in kernel POMDPs whose consistency remains to be established. Our theoretical work solves this open problem and provides consistency analysis in regression settings. Based on our optimizational formulation, we propose a flexible Bayesian posterior regularization framework which for the first time enables us to put regularization at the distribution level. We apply this method to nonparametric state-space filtering tasks with extremely nonlinear dynamics and show performance gains over all other baselines.