The behavior composition problem involves automatically building a controller that is able to realize a desired, but unavailable, target system (e.g., a house surveillance) by suitably coordinating a set of available components (e.g., video cameras, blinds, lamps, a vacuum cleaner, phones, etc.) Previous work has almost exclusively aimed at bringing about the desired component in its totality, which is highly unsatisfactory for unsolvable problems. In this work, we develop an approach for approximate behavior composition without departing from the classical setting, thus making the problem applicable to a much wider range of cases. Based on the notion of simulation, we characterize what a maximal controller and the "closest" implementable target module (optimal approximation) are, and show how these can be computed using ATL model checking technology for a special case. We show the uniqueness of optimal approximations, and prove their soundness and completeness with respect to their imported controllers.

We mathematically model Ignacio Matte Blanco's principles of symmetric and asymmetric being through use of an ultrametric topology. We use for this the highly regarded 1975 book of this Chilean psychiatrist and pyschoanalyst (born 1908, died 1995). Such an ultrametric model corresponds to hierarchical clustering in the empirical data, e.g. text. We show how an ultrametric topology can be used as a mathematical model for the structure of the logic that reflects or expresses Matte Blanco's symmetric being, and hence of the reasoning and thought processes involved in conscious reasoning or in reasoning that is lacking, perhaps entirely, in consciousness or awareness of itself. In a companion paper we study how symmetric (in the sense of Matte Blanco's) reasoning can be demarcated in a context of symmetric and asymmetric reasoning provided by narrative text.

The prediction of behavioral information or cognitive states from brain activation images such as those obtained with fMRI can be used to assess the specificity of several brain regions for certain cognitive or perceptual functions. This kind of analysis is implemented by learning a classifier or regression function that fits a given target variable given fMRI activations. The accuracy of this prediction depends on whether it uses the relevant variables i.e. the correct brain regions. Recovering the truly predictive pattern has proven to be challenging from a statistical point of view: the high dimensionality of the data together with the limited number of images makes the problem of brain pattern recovery an ill-posed problem. So far, the approaches proposed to address this issue have relied on linear models, with univariate, i.e. voxel-based, Anova (analysis of variance) for hypothesis testing, or, for predictive modeling, with the choice of a regularizer using a priori domain-specific knowledge, such as the l

In recent years, technological developments in computer networking have predominantly focused on improving connection media speeds and state-of-the-art applications. In tandem with user demand for high-speed delivery of information, tolerance for performance and connectivity issues has decreased. Due to the complexity and scale of modern communications networks that include a multitude of possible client devices, traditional "expert knowledge" or "rule based" methods of performance and fault diagnosis are increasingly inefficient and infeasible. Analysis of packet traces, especially from the Transmission Control Protocol (TCP), is a sophisticated inference based technique used to diagnose complicated network problems in specialized cases. TCP traces contain artifacts related to behavioral characteristics of network elements that a skilled investigator can use to infer the location and root cause of a network fault.

Understanding the structure and dynamics of biological networks is one of the important challenges in system biology. In addition, increasing amount of experimental data in biological networks necessitate the use of efficient methods to analyze these huge amounts of data. Such methods require to recognize common patterns to analyze data. As biological networks can be modeled by graphs, the problem of common patterns recognition is equivalent with frequent sub graph mining in a set of graphs. In this paper, at first the challenges of frequent subgrpahs mining in biological networks are introduced and the existing approaches are classified for each challenge.

Non-negative matrix factorization (NMF) approximates a non-negative matrix $X$ by a product of two non-negative low-rank factor matrices $W$ and $H$. NMF and its extensions minimize either the Kullback-Leibler divergence or the Euclidean distance between $X$ and $W^T H$ to model the Poisson noise or the Gaussian noise. In practice, when the noise distribution is heavy tailed, they cannot perform well. This paper presents Manhattan NMF (MahNMF) which minimizes the Manhattan distance between $X$ and $W^T H$ for modeling the heavy tailed Laplacian noise. Similar to sparse and low-rank matrix decompositions, MahNMF robustly estimates the low-rank part and the sparse part of a non-negative matrix and thus performs effectively when data are contaminated by outliers. We extend MahNMF for various practical applications by developing box-constrained MahNMF, manifold regularized MahNMF, group sparse MahNMF, elastic net inducing MahNMF, and symmetric MahNMF. The major contribution of this paper lies in two fast optimization algorithms for MahNMF and its extensions: the rank-one residual iteration (RRI) method and Nesterov's smoothing method. In particular, by approximating the residual matrix by the outer product of one row of W and one row of $H$ in MahNMF, we develop an RRI method to iteratively update each variable of $W$ and $H$ in a closed form solution. Although RRI is efficient for small scale MahNMF and some of its extensions, it is neither scalable to large scale matrices nor flexible enough to optimize all MahNMF extensions. Since the objective functions of MahNMF and its extensions are neither convex nor smooth, we apply Nesterov's smoothing method to recursively optimize one factor matrix with another matrix fixed. By setting the smoothing parameter inversely proportional to the iteration number, we improve the approximation accuracy iteratively for both MahNMF and its extensions.

Inference of hidden classes in stochastic block model is a classical problem with important applications. Most commonly used methods for this problem involve na\"{\i}ve mean field approaches or heuristic spectral methods. Recently, belief propagation was proposed for this problem. In this contribution we perform a comparative study between the three methods on synthetically created networks. We show that belief propagation shows much better performance when compared to na\"{\i}ve mean field and spectral approaches. This applies to accuracy, computational efficiency and the tendency to overfit the data.

In this paper, we present a formalization of an algorithm to construct admissible discrete vector fields in the Coq theorem prover taking advantage of the SSReflect library. Discrete vector fields are a tool which has been welcomed in the homological analysis of digital images since it provides a procedure to reduce the amount of information but preserving the homological properties. In particular, thanks to discrete vector fields, we are able to compute, inside Coq, homological properties of biomedical images which otherwise are out of the reach of this system.

Microarray cancer gene expression data comprise of very high dimensions. Reducing the dimensions helps in improving the overall analysis and classification performance. We propose two hybrid techniques, Biogeography - based Optimization - Random Forests (BBO - RF) and BBO - SVM (Support Vector Machines) with gene ranking as a heuristic, for microarray gene expression analysis. This heuristic is obtained from information gain filter ranking procedure. The BBO algorithm generates a population of candidate subset of genes, as part of an ecosystem of habitats, and employs the migration and mutation processes across multiple generations of the population to improve the classification accuracy. The fitness of each gene subset is assessed by the classifiers - SVM and Random Forests. The performances of these hybrid techniques are evaluated on three cancer gene expression datasets retrieved from the Kent Ridge Biomedical datasets collection and the libSVM data repository. Our results demonstrate that genes selected by the proposed techniques yield classification accuracies comparable to previously reported algorithms.

A diagnostic policy specifies what test to perform next, based on the results of previous tests, and when to stop and make a diagnosis. Cost-sensitive diagnostic policies perform tradeoffs between (a) the cost of tests and (b) the cost of misdiagnoses. An optimal diagnostic policy minimizes the expected total cost. We formalize this diagnosis process as a Markov Decision Process (MDP). We investigate two types of algorithms for solving this MDP: systematic search based on AO* algorithm and greedy search (particularly the Value of Information method). We investigate the issue of learning the MDP probabilities from examples, but only as they are relevant to the search for good policies. We do not learn nor assume a Bayesian network for the diagnosis process. Regularizers are developed to control overfitting and speed up the search. This research is the first that integrates overfitting prevention into systematic search. The paper has two contributions: it discusses the factors that make systematic search feasible for diagnosis, and it shows experimentally, on benchmark data sets, that systematic search methods produce better diagnostic policies than greedy methods.