In the last few decades, model complexity has received a lot of press. While many methods have been proposed that jointly measure a model’s descriptive adequacy and its complexity, few measures exist that measure complexity in itself. Moreover, existing measures ignore the parameter prior, which is an inherent part of the model and affects the complexity. This paper presents a stand alone measure for model complexity, that takes the number of parameters, the functional form, the range of the parameters and the parameter prior into account. This Prior Predictive Complexity (PPC) is an intuitive and easy to compute measure. It starts from the observation that model complexity is the property of the model that enables it to fit a wide range of outcomes. The PPC then measures how wide this range exactly is.

In the Gaussian process regression the observation model is commonly assumed to be Gaussian, which is convenient in computational perspective. However, the drawback is that the predictive accuracy of the model can be significantly compromised if the observations are contaminated by outliers. A robust observation model, such as the Student-t distribution, reduces the influence of outlying observations and improves the predictions. The problem, however, is the analytically intractable inference. In this work, we discuss the properties of a Gaussian process regression model with the Student-t likelihood and utilize the Laplace approximation for approximate inference. We compare our approach to a variational approximation and a Markov chain Monte Carlo scheme, which utilize the commonly used scale mixture representation of the Student-t distribution.

We introduce a novel multivariate Laplace (MVL) distribution as a sparsity promoting prior for Bayesian source localization that allows the specification of constraints between and within sources. We represent the MVL distribution as a scale mixture that induces a coupling between source variances instead of their means. Approximation of the posterior marginals using expectation propagation is shown to be very efficient due to properties of the scale mixture representation. The computational bottleneck amounts to computing the diagonal elements of a sparse matrix inverse. Our approach is illustrated using a mismatch negativity paradigm for which MEG data and a structural MRI have been acquired. We show that spatial coupling leads to sources which are active over larger cortical areas as compared with an uncoupled prior.

The recently proposed \emph{additive noise model} has advantages over previous structure learning algorithms, when attempting to recover some true data generating mechanism, since it (i) does not assume linearity or Gaussianity and (ii) can recover a unique DAG rather than an equivalence class. However, its original extension to the multivariate case required enumerating all possible DAGs, and for some special distributions, e.g. linear Gaussian, the model is invertible and thus cannot be used for structure learning. We present a new approach which combines a PC style search using recent advances in kernel measures of conditional dependence with local searches for additive noise models in substructures of the equivalence class. This results in a more computationally efficient approach that is useful for arbitrary distributions even when additive noise models are invertible. Experiments with synthetic and real data show that this method is more accurate than previous methods when data are nonlinear and/or non-Gaussian.

When individuals independently recollect events or retrieve facts from memory, how can we aggregate these retrieved memories to reconstruct the actual set of events or facts? In this research, we report the performance of individuals in a series of general knowledge tasks, where the goal is to reconstruct from memory the order of historic events, or the order of items along some physical dimension. We introduce two Bayesian models for aggregating order information based on a Thurstonian approach and Mallows model. Both models assume that each individuals reconstruction is based on either a random permutation of the unobserved ground truth, or by a pure guessing strategy. We apply MCMC to make inferences about the underlying truth and the strategies employed by individuals. The models demonstrate a wisdom of crowds" effect, where the aggregated orderings are closer to the true ordering than the orderings of the best individual."

Directed graphical models such as Bayesian networks are a favored formalism to model the dependency structures in complex multivariate systems such as those encountered in biology and neural sciences. When the system is undergoing dynamic transformation, often a temporally rewiring network is needed for capturing the dynamic causal influences between covariates. In this paper, we propose a time-varying dynamic Bayesian network (TV-DBN) for modeling the structurally varying directed dependency structures underlying non-stationary biological/neural time series. This is a challenging problem due the non-stationarity and sample scarcity of the time series. We present a kernel reweighted $\ell_1$ regularized auto-regressive procedure for learning the TV-DBN model. Our method enjoys nice properties such as computational efficiency and provable asymptotic consistency. Applying TV-DBN to time series measurements during yeast cell cycle and brain response to visual stimuli reveals interesting dynamics underlying the respective biological systems.

The goal of perception is to infer the hidden states in the hierarchical process by which sensory data are generated. Human behavior is consistent with the optimal statistical solution to this problem in many tasks, including cue combination and orientation detection. Understanding the neural mechanisms underlying this behavior is of particular importance, since probabilistic computations are notoriously challenging. Here we propose a simple mechanism for Bayesian inference which involves averaging over a few feature detection neurons which fire at a rate determined by their similarity to a sensory stimulus. This mechanism is based on a Monte Carlo method known as importance sampling, commonly used in computer science and statistics. Moreover, a simple extension to recursive importance sampling can be used to perform hierarchical Bayesian inference. We identify a scheme for implementing importance sampling with spiking neurons, and show that this scheme can account for human behavior in cue combination and oblique effect.

Automated recovery from failures is a key component in the management of large data centers. Such systems typically employ a hand-made controller created by an expert. While such controllers capture many important aspects of the recovery process, they are often not systematically optimized to reduce costs such as server downtime. In this paper we explain how to use data gathered from the interactions of the hand-made controller with the system, to create an optimized controller. We suggest learning an indefinite horizon Partially Observable Markov Decision Process, a model for decision making under uncertainty, and solve it using a point-based algorithm. We describe the complete process, starting with data gathering, model learning, model checking procedures, and computing a policy. While our paper focuses on a specific domain, our method is applicable to other systems that use a hand-coded, imperfect controllers.

We show how to sequentially optimize magnetic resonance imaging measurement designs over stacks of neighbouring image slices, by performing convex variational inference on a large scale non-Gaussian linear dynamical system, tracking dominating directions of posterior covariance without imposing any factorization constraints. Our approach can be scaled up to high-resolution images by reductions to numerical mathematics primitives and parallelization on several levels. In a first study, designs are found that improve significantly on others chosen independently for each slice or drawn at random.

We present a general Bayesian approach to probabilistic matrix factorization subject to linear constraints. The approach is based on a Gaussian observation model and Gaussian priors with bilinear equality and inequality constraints. We present an efficient Markov chain Monte Carlo inference procedure based on Gibbs sampling. Special cases of the proposed model are Bayesian formulations of non-negative matrix factorization and factor analysis. The method is evaluated on a blind source separation problem. We demonstrate that our algorithm can be used to extract meaningful and interpretable features that are remarkably different from features extracted using existing related matrix factorization techniques.