High dimensional regression benefits from sparsity promoting regularizations. Screening rules leverage the known sparsity of the solution by ignoring some variables in the optimization, hence speeding up solvers. When the procedure is proven not to discard features wrongly the rules are said to be \emph{safe}. In this paper we derive new safe rules for generalized linear models regularized with $\ell_1$ and $\ell_1/\ell_2$ norms. The rules are based on duality gap computations and spherical safe regions whose diameters converge to zero. This allows to discard safely more variables, in particular for low regularization parameters. The GAP Safe rule can cope with any iterative solver and we illustrate its performance on coordinate descent for multi-task Lasso, binary and multinomial logistic regression, demonstrating significant speed ups on all tested datasets with respect to previous safe rules.

The study of representations invariant to common transformations of the data is important to learning. Most techniques have focused on local approximate invariance implemented within expensive optimization frameworks lacking explicit theoretical guarantees. In this paper, we study kernels that are invariant to the unitary group while having theoretical guarantees in addressing practical issues such as (1) unavailability of transformed versions of labelled data and (2) not observing all transformations. We present a theoretically motivated alternate approach to the invariant kernel SVM. Unlike previous approaches to the invariant SVM, the proposed formulation solves both issues mentioned. We also present a kernel extension of a recent technique to extract linear unitary-group invariant features addressing both issues and extend some guarantees regarding invariance and stability. We present experiments on the UCI ML datasets to illustrate and validate our methods.

The random forest algorithm, proposed by L. Breiman in 2001, has been extremely successful as a general-purpose classification and regression method. The approach, which combines several randomized decision trees and aggregates their predictions by averaging, has shown excellent performance in settings where the number of variables is much larger than the number of observations. Moreover, it is versatile enough to be applied to large-scale problems, is easily adapted to various ad-hoc learning tasks, and returns measures of variable importance. The present article reviews the most recent theoretical and methodological developments for random forests. Emphasis is placed on the mathematical forces driving the algorithm, with special attention given to the selection of parameters, the resampling mechanism, and variable importance measures. This review is intended to provide non-experts easy access to the main ideas.

Expectation propagation (EP) is a deterministic approximation algorithm that is often used to perform approximate Bayesian parameter learning. EP approximates the full intractable posterior distribution through a set of local approximations that are iteratively refined for each datapoint. EP can offer analytic and computational advantages over other approximations, such as Variational Inference (VI), and is the method of choice for a number of models. The local nature of EP appears to make it an ideal candidate for performing Bayesian learning on large models in large-scale dataset settings. However, EP has a crucial limitation in this context: the number of approximating factors needs to increase with the number of data-points, N, which often entails a prohibitively large memory overhead. This paper presents an extension to EP, called stochastic expectation propagation (SEP), that maintains a global posterior approximation (like VI) but updates it in a local way (like EP). Experiments on a number of canonical learning problems using synthetic and real-world datasets indicate that SEP performs almost as well as full EP, but reduces the memory consumption by a factor of $N$. SEP is therefore ideally suited to performing approximate Bayesian learning in the large model, large dataset setting.

In this work, we study the problem of aggregating a finite number of predictors for nonstationary sub-linear processes. We provide oracle inequalities relying essentially on three ingredients: (1) a uniform bound of the $\ell^1$ norm of the time varying sub-linear coefficients, (2) a Lipschitz assumption on the predictors and (3) moment conditions on the noise appearing in the linear representation. Two kinds of aggregations are considered giving rise to different moment conditions on the noise and more or less sharp oracle inequalities. We apply this approach for deriving an adaptive predictor for locally stationary time varying autoregressive (TVAR) processes. It is obtained by aggregating a finite number of well chosen predictors, each of them enjoying an optimal minimax convergence rate under specific smoothness conditions on the TVAR coefficients. We show that the obtained aggregated predictor achieves a minimax rate while adapting to the unknown smoothness. To prove this result, a lower bound is established for the minimax rate of the prediction risk for the TVAR process. Numerical experiments complete this study. An important feature of this approach is that the aggregated predictor can be computed recursively and is thus applicable in an online prediction context.

Normalized random measures (NRMs) provide a broad class of discrete random measures that are often used as priors for Bayesian nonparametric models. Dirichlet process is a well-known example of NRMs. Most of posterior inference methods for NRM mixture models rely on MCMC methods since they are easy to implement and their convergence is well studied. However, MCMC often suffers from slow convergence when the acceptance rate is low. Tree-based inference is an alternative deterministic posterior inference method, where Bayesian hierarchical clustering (BHC) or incremental Bayesian hierarchical clustering (IBHC) have been developed for DP or NRM mixture (NRMM) models, respectively. Although IBHC is a promising method for posterior inference for NRMM models due to its efficiency and applicability to online inference, its convergence is not guaranteed since it uses heuristics that simply selects the best solution after multiple trials are made. In this paper, we present a hybrid inference algorithm for NRMM models, which combines the merits of both MCMC and IBHC. Trees built by IBHC outlines partitions of data, which guides Metropolis-Hastings procedure to employ appropriate proposals. Inheriting the nature of MCMC, our tree-guided MCMC (tgMCMC) is guaranteed to converge, and enjoys the fast convergence thanks to the effective proposals guided by trees. Experiments on both synthetic and real-world datasets demonstrate the benefit of our method.

We consider the problem of recovering a complete (i.e., square and invertible) matrix $\mathbf A_0$, from $\mathbf Y \in \mathbb R^{n \times p}$ with $\mathbf Y = \mathbf A_0 \mathbf X_0$, provided $\mathbf X_0$ is sufficiently sparse. This recovery problem is central to the theoretical understanding of dictionary learning, which seeks a sparse representation for a collection of input signals, and finds numerous applications in modern signal processing and machine learning. We give the first efficient algorithm that provably recovers $\mathbf A_0$ when $\mathbf X_0$ has $O(n)$ nonzeros per column, under suitable probability model for $\mathbf X_0$. In contrast, prior results based on efficient algorithms provide recovery guarantees when $\mathbf X_0$ has only $O(n^{1-\delta})$ nonzeros per column for any constant $\delta \in (0, 1)$. Our algorithmic pipeline centers around solving a certain nonconvex optimization problem with a spherical constraint, and hence is naturally phrased in the language of manifold optimization. To show this apparently hard problem is tractable, we first provide a geometric characterization of the high-dimensional objective landscape, which shows that with high probability there are no "spurious" local minima. This particular geometric structure allows us to design a Riemannian trust region algorithm over the sphere that provably converges to one local minimizer with an arbitrary initialization, despite the presence of saddle points. The geometric approach we develop here may also shed light on other problems arising from nonconvex recovery of structured signals.

Suppose that a graph is realized from a stochastic block model where one of the blocks is of interest, but many or all of the vertices' block labels are unobserved. The task is to order the vertices with unobserved block labels into a "nomination list" such that, with high probability, vertices from the interesting block are concentrated near the list's beginning. We propose several vertex nomination schemes. Our basic--but principled--setting and development yields a best nomination scheme (which is a Bayes-Optimal analogue), and also a likelihood maximization nomination scheme that is practical to implement when there are a thousand vertices, and which is empirically near-optimal when the number of vertices is small enough to allow comparison to the best nomination scheme. We then illustrate the robustness of the likelihood maximization nomination scheme to the modeling challenges inherent in real data, using examples which include a social network involving human trafficking, the Enron Graph, a worm brain connectome and a political blog network. In a stochastic block model, the vertices of the graph are partitioned into blocks, and the existence/nonexistence of an edge between any pair of vertices is an independent Bernoulli trial, with the Bernoulli parameter being a function of the block memberships of the pair of vertices. We are concerned here with a graph realized from a stochastic block model such that many or all of the vertices' block labels are hidden (i.e., unobserved). Received August 2014; revised February 2015. Supported in part by Johns Hopkins University Human Language Technology Center of Excellence (JHU HLT COE) and the XDATA program of the Defense Advanced Research Projects Agency (DARPA) administered through Air Force Research Laboratory contract FA8750-12-2-0303.

Pseudo-marginal Metropolis-Hastings (pmMH) is a powerful method for Bayesian inference in models where the posterior distribution is analytical intractable or computationally costly to evaluate directly. It operates by introducing additional auxiliary variables into the model and form an extended target distribution, which then can be evaluated point-wise. In many cases, the standard Metropolis-Hastings is then applied to sample from the extended target and the sought posterior can be obtained by marginalisation. However, in some implementations this approach suffers from poor mixing as the auxiliary variables are sampled from an independent proposal. We propose a modification to the pmMH algorithm in which a Crank-Nicolson (CN) proposal is used instead. This results in that we introduce a positive correlation in the auxiliary variables. We investigate how to tune the CN proposal and its impact on the mixing of the resulting pmMH sampler. The conclusion is that the proposed modification can have a beneficial effect on both the mixing of the Markov chain and the computational cost for each iteration of the pmMH algorithm.

Convolutional neural networks (CNN) have achieved state of the art performance on both classification and segmentation tasks. Applying CNNs to microscopy images is challenging due to the lack of datasets labeled at the single cell level. We extend the application of CNNs to microscopy image classification and segmentation using multiple instance learning (MIL). We present the adaptive Noisy-AND MIL pooling function, a new MIL operator that is robust to outliers. Combining CNNs with MIL enables training CNNs using full resolution microscopy images with global labels. We base our approach on the similarity between the aggregation function used in MIL and pooling layers used in CNNs. We show that training MIL CNNs end-to-end outperforms several previous methods on both mammalian and yeast microscopy images without requiring any segmentation steps.