Calcium imaging permits optical measurement of neural activity.

In neuroscience, the similarity matrix of neural activity patterns in response to different sensory stimuli or under different cognitive states reflects the structure of neural representational space. Existing methods derive point estimations of neural activity patterns from noisy neural imaging data, and the similarity is calculated from these point estimations. We show that this approach translates structured noise from estimated patterns into spurious bias structure in the resulting similarity matrix, which is especially severe when signal-to-noise ratio is low and experimental conditions cannot be fully randomized in a cognitive task. We propose an alternative Bayesian framework for computing representational similarity in which we treat the covariance structure of neural activity patterns as a hyper-parameter in a generative model of the neural data, and directly estimate this covariance structure from imaging data while marginalizing over the unknown activity patterns. Converting the estimated covariance structure into a correlation matrix offers a much less biased estimate of neural representational similarity. Our method can also simultaneously estimate a signal-to-noise map that informs where the learned representational structure is supported more strongly, and the learned covariance matrix can be used as a structured prior to constrain Bayesian estimation of neural activity patterns.

Towards learning programs from data, we introduce the problem of sampling programs from posterior distributions conditioned on that data. Within this setting, we propose an algorithm that uses a symbolic solver to efficiently sample programs. The proposal combines constraint-based program synthesis with sampling via random parity constraints. We give theoretical guarantees on how well the samples approximate the true posterior, and have empirical results showing the algorithm is efficient in practice, evaluating our approach on 22 program learning problems in the domains of text editing and computer-aided programming.

A central challenge in sensory neuroscience is to understand neural computations and circuit mechanisms that underlie the encoding of ethologically relevant, natural stimuli. In multilayered neural circuits, nonlinear processes such as synaptic transmission and spiking dynamics present a significant obstacle to the creation of accurate computational models of responses to natural stimuli. Here we demonstrate that deep convolutional neural networks (CNNs) capture retinal responses to natural scenes nearly to within the variability of a cell's response, and are markedly more accurate than linear-nonlinear (LN) models and Generalized Linear Models (GLMs). Moreover, we find two additional surprising properties of CNNs: they are less susceptible to overfitting than their LN counterparts when trained on small amounts of data, and generalize better when tested on stimuli drawn from a different distribution (e.g. between natural scenes and white noise). An examination of the learned CNNs reveals several properties.

Cross-region dynamic connectivity, which describes spatio-temporal dependence of neural activity among multiple brain regions of interest (ROIs), can provide important information for understanding cognition. For estimating such connectivity, magnetoencephalography (MEG) and electroencephalography (EEG) are well-suited tools because of their millisecond temporal resolution. However, localizing source activity in the brain requires solving an under-determined linear problem. In typical two-step approaches, researchers first solve the linear problem with general priors assuming independence across ROIs, and secondly quantify cross-region connectivity. In this work, we propose a one-step state-space model to improve estimation of dynamic connectivity. The model treats the mean activity in individual ROIs as the state variable, and describes non-stationary dynamic dependence across ROIs using time-varying auto-regression. Compared with a two-step method, which first obtains the commonly used minimum-norm estimates of source activity, and then fits the auto-regressive model, our state-space model yielded smaller estimation errors on simulated data where the model assumptions held. When applied on empirical MEG data from one participant in a scene-processing experiment, our state-space model also demonstrated intriguing preliminary results, indicating leading and lagged linear dependence between the early visual cortex and a higher-level scene-sensitive region, which could reflect feed-forward and feedback information flow within the visual cortex during scene processing.

We only observe their transformed versions $h(\mathbf{x_s^i})$ and $g(\mathbf{x_t^i})$, for some known function class $h(\cdot)$ and $g(\cdot)$. Our goal is to perform a statistical test checking if $P_{\rm source}$ = $P_{\rm target}$ while removing the distortions induced by the transformations. This problem is closely related to concepts underlying numerous domain adaptation algorithms, and in our case, is motivated by the need to combine clinical and imaging based biomarkers from multiple sites and/or batches, where this problem is fairly common and an impediment in the conduct of analyses with much larger sample sizes. We develop a framework that addresses this problem using ideas from hypothesis testing on the transformed measurements, where in the distortions need to be estimated {\it in tandem} with the testing. We derive a simple algorithm and study its convergence and consistency properties in detail, and we also provide lower-bound strategies based on recent work in continuous optimization. On a dataset of individuals at risk for neurological disease, our results are competitive with alternative procedures that are twice as expensive and in some cases operationally infeasible to implement.

We introduce the Adaptive Skills, Adaptive Partitions (ASAP) framework that (1) learns skills (i.e., temporally extended actions or options) as well as (2) where to apply them. We believe that both (1) and (2) are necessary for a truly general skill learning framework, which is a key building block needed to scale up to lifelong learning agents. The ASAP framework is also able to solve related new tasks simply by adapting where it applies its existing learned skills. We prove that ASAP converges to a local optimum under natural conditions. Finally, our experimental results, which include a RoboCup domain, demonstrate the ability of ASAP to learn where to reuse skills as well as solve multiple tasks with considerably less experience than solving each task from scratch.

Decision making under uncertainty is commonly modelled as a process of competitive stochastic evidence accumulation to threshold (the drift-diffusion model). However, it is unknown how animals learn these decision thresholds. We examine threshold learning by constructing a reward function that averages over many trials to Wald's cost function that defines decision optimality. These rewards are highly stochastic and hence challenging to optimize, which we address in two ways: first, a simple two-factor reward-modulated learning rule derived from Williams' REINFORCE method for neural networks; and second, Bayesian optimization of the reward function with a Gaussian process. Bayesian optimization converges in fewer trials than REINFORCE but is slower computationally with greater variance. The REINFORCE method is also a better model of acquisition behaviour in animals and a similar learning rule has been proposed for modelling basal ganglia function.

With the increasing popularity of machine learning techniques, it has become common to see prediction algorithms operating within some larger process. However, the criteria by which we train these algorithms often differ from the ultimate criteria on which we evaluate them. This paper proposes an end-to-end approach for learning probabilistic machine learning models in a manner that directly captures the ultimate task-based objective for which they will be used, within the context of stochastic programming. We present three experimental evaluations of the proposed approach: a classical inventory stock problem, a real-world electrical grid scheduling task, and a real-world energy storage arbitrage task. We show that the proposed approach can outperform both traditional modeling and purely black-box policy optimization approaches in these applications.

In this paper, we propose ELF, an Extensive, Lightweight and Flexible platform for fundamental reinforcement learning research. Using ELF, we implement a highly customizable real-time strategy (RTS) engine with three game environments (Mini-RTS, Capture the Flag and Tower Defense). Mini-RTS, as a miniature version of StarCraft, captures key game dynamics and runs at 165K frame-per-second (FPS) on a laptop. When coupled with modern reinforcement learning methods, the system can train a full-game bot against built-in AIs end-to-end in one day with 6 CPUs and 1 GPU. In addition, our platform is flexible in terms of environment-agent communication topologies, choices of RL methods, changes in game parameters, and can host existing C/C++-based game environments like ALE. Using ELF, we thoroughly explore training parameters and show that a network with Leaky ReLU and Batch Normalization coupled with long-horizon training and progressive curriculum beats the rule-based built-in AI more than 70% of the time in the full game of Mini-RTS. Strong performance is also achieved on the other two games. In game replays, we show our agents learn interesting strategies.