We consider the problem of inferring direct neural network connections from Calcium imaging time series. Inverse covariance estimation has proven to be a fast and accurate method for learning macro- and micro-scale network connectivity in the brain and in a recent Kaggle Connectomics competition inverse covariance was the main component of several top ten solutions, including our own and the winning team's algorithm. However, the accuracy of inverse covariance estimation is highly sensitive to signal preprocessing of the Calcium fluorescence time series. Furthermore, brute force optimization methods such as grid search and coordinate ascent over signal processing parameters is a time intensive process, where learning may take several days and parameters that optimize one network may not generalize to networks with different size and parameters. In this paper we show how inverse covariance estimation can be dramatically improved using a simple convolution filter prior to applying sample covariance. Furthermore, these signal processing parameters can be learned quickly using a supervised optimization algorithm. In particular, we maximize a binomial log-likelihood loss function with respect to a convolution filter of the time series and the inverse covariance regularization parameter. Our proposed algorithm is relatively fast on networks the size of those in the competition (1000 neurons), producing AUC scores with similar accuracy to the winning solution in training time under 2 hours on a cpu. Prediction on new networks of the same size is carried out in less than 15 minutes, the time it takes to read in the data and write out the solution.

Many important distributions are high dimensional, and often they can be modeled as Gaussian mixtures. We derive the first sample-efficient polynomial-time estimator for high-dimensional spherical Gaussian mixtures. Based on intuitive spectral reasoning, it approximates mixtures of $k$ spherical Gaussians in $d$-dimensions to within$\ell_1$ distance $\epsilon$ using $\mathcal{O}({dk^9(\log^2 d)}/{\epsilon^4})$ samples and $\mathcal{O}_{k,\epsilon}(d^3\log^5 d)$ computation time. Conversely, we show that any estimator requires $\Omega\bigl({dk}/{\epsilon^2}\bigr)$ samples, hence the algorithm's sample complexity is nearly optimal in the dimension. The implied time-complexity factor \mathcal{O}_{k,\epsilon}$ is exponential in $k$, but much smaller than previously known. We also construct a simple estimator for one-dimensional Gaussian mixtures that uses $\tilde\mathcal{O}(k /\epsilon^2)$ samples and $\tilde\mathcal{O}((k/\epsilon)^{3k+1})$ computation time.

We present the Convex Polytope Machine (CPM), a novel non-linear learning algorithm for large-scale binary classification tasks. The CPM finds a large margin convex polytope separator which encloses one class. We develop a stochastic gradient descent based algorithm that is amenable to massive datasets, and augment it with a heuristic procedure to avoid sub-optimal local minima. Our experimental evaluations of the CPM on large-scale datasets from distinct domains (MNIST handwritten digit recognition, text topic, and web security) demonstrate that the CPM trains models faster, sometimes several orders of magnitude, than state-of-the-art similar approaches and kernel-SVM methods while achieving comparable or better classification performance. Our empirical results suggest that, unlike prior similar approaches, we do not need to control the number of sub-classifiers (sides of the polytope) to avoid overfitting.

Dynamics-based sampling methods, such as Hybrid Monte Carlo (HMC) and Langevin dynamics (LD), are commonly used to sample target distributions. Recently, such approaches have been combined with stochastic gradient techniques to increase sampling efficiency when dealing with large datasets. An outstanding problem with this approach is that the stochastic gradient introduces an unknown amount of noise which can prevent proper sampling after discretization. To remedy this problem, we show that one can leverage a small number of additional variables in order to stabilize momentum fluctuations induced by the unknown noise. Our method is inspired by the idea of a thermostat in statistical physics and is justified by a general theory.

A major challenge in scaling object detection is the difficulty of obtaining labeled images for large numbers of categories. Recently, deep convolutional neural networks (CNNs) have emerged as clear winners on object classification benchmarks, in part due to training with 1.2M+ labeled classification images. Unfortunately, only a small fraction of those labels are available for the detection task. It is much cheaper and easier to collect large quantities of image-level labels from search engines than it is to collect detection data and label it with precise bounding boxes. In this paper, we propose Large Scale Detection through Adaptation (LSDA), an algorithm which learns the difference between the two tasks and transfers this knowledge to classifiers for categories without bounding box annotated data, turning them into detectors. Our method has the potential to enable detection for the tens of thousands of categories that lack bounding box annotations, yet have plenty of classification data. Evaluation on the ImageNet LSVRC-2013 detection challenge demonstrates the efficacy of our approach. This algorithm enables us to produce a >7.6K detector by using available classification data from leaf nodes in the ImageNet tree. We additionally demonstrate how to modify our architecture to produce a fast detector (running at 2fps for the 7.6K detector). Models and software are available at

We develop an automated variational method for approximate inference in Gaussian process (GP) models whose posteriors are often intractable. Using a mixture of Gaussians as the variational distribution, we show that (i) the variational objective and its gradients can be approximated efficiently via sampling from univariate Gaussian distributions and (ii) the gradients of the GP hyperparameters can be obtained analytically regardless of the model likelihood. We further propose two instances of the variational distribution whose covariance matrices can be parametrized linearly in the number of observations. These results allow gradient-based optimization to be done efficiently in a black-box manner. Our approach is thoroughly verified on 5 models using 6 benchmark datasets, performing as well as the exact or hard-coded implementations while running orders of magnitude faster than the alternative MCMC sampling approaches. Our method can be a valuable tool for practitioners and researchers to investigate new models with minimal effort in deriving model-specific inference algorithms.

We present the first sample compression algorithm for nearest neighbors with non-trivial performance guarantees. We complement these guarantees by demonstrating almost matching hardness lower bounds, which show that our bound is nearly optimal. Our result yields new insight into margin-based nearest neighbor classification in metric spaces and allows us to significantly sharpen and simplify existing bounds. Some encouraging empirical results are also presented.

We propose information-directed sampling -- a new algorithm for online optimization problems in which a decision-maker must balance between exploration and exploitation while learning from partial feedback. Each action is sampled in a manner that minimizes the ratio between the square of expected single-period regret and a measure of information gain: the mutual information between the optimal action and the next observation. We establish an expected regret bound for information-directed sampling that applies across a very general class of models and scales with the entropy of the optimal action distribution. For the widely studied Bernoulli and linear bandit models, we demonstrate simulation performance surpassing popular approaches, including upper confidence bound algorithms, Thompson sampling, and knowledge gradient. Further, we present simple analytic examples illustrating that information-directed sampling can dramatically outperform upper confidence bound algorithms and Thompson sampling due to the way it measures information gain.

We propose a novel sampling framework for inference in probabilistic models: an active learning approach that converges more quickly (in wall-clock time) than Markov chain Monte Carlo (MCMC) benchmarks. The central challenge in probabilistic inference is numerical integration, to average over ensembles of models or unknown (hyper-)parameters (for example to compute marginal likelihood or a partition function). MCMC has provided approaches to numerical integration that deliver state-of-the-art inference, but can suffer from sample inefficiency and poor convergence diagnostics. Bayesian quadrature techniques offer a model-based solution to such problems, but their uptake has been hindered by prohibitive computation costs. We introduce a warped model for probabilistic integrands (likelihoods) that are known to be non-negative, permitting a cheap active learning scheme to optimally select sample locations. Our algorithm is demonstrated to offer faster convergence (in seconds) relative to simple Monte Carlo and annealed importance sampling on both synthetic and real-world examples.

The prediction of time-changing variances is an important task in the modeling of financial data. Standard econometric models are often limited as they assume rigid functional relationships for the evolution of the variance. Moreover, functional parameters are usually learned by maximum likelihood, which can lead to overfitting. To address these problems we introduce GP-Vol, a novel non-parametric model for time-changing variances based on Gaussian Processes. This new model can capture highly flexible functional relationships for the variances. Furthermore, we introduce a new online algorithm for fast inference in GP-Vol. This method is much faster than current offline inference procedures and it avoids overfitting problems by following a fully Bayesian approach. Experiments with financial data show that GP-Vol performs significantly better than current standard alternatives.