1,681 research outputs found

    Efficient transfer entropy analysis of non-stationary neural time series

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    Information theory allows us to investigate information processing in neural systems in terms of information transfer, storage and modification. Especially the measure of information transfer, transfer entropy, has seen a dramatic surge of interest in neuroscience. Estimating transfer entropy from two processes requires the observation of multiple realizations of these processes to estimate associated probability density functions. To obtain these observations, available estimators assume stationarity of processes to allow pooling of observations over time. This assumption however, is a major obstacle to the application of these estimators in neuroscience as observed processes are often non-stationary. As a solution, Gomez-Herrero and colleagues theoretically showed that the stationarity assumption may be avoided by estimating transfer entropy from an ensemble of realizations. Such an ensemble is often readily available in neuroscience experiments in the form of experimental trials. Thus, in this work we combine the ensemble method with a recently proposed transfer entropy estimator to make transfer entropy estimation applicable to non-stationary time series. We present an efficient implementation of the approach that deals with the increased computational demand of the ensemble method's practical application. In particular, we use a massively parallel implementation for a graphics processing unit to handle the computationally most heavy aspects of the ensemble method. We test the performance and robustness of our implementation on data from simulated stochastic processes and demonstrate the method's applicability to magnetoencephalographic data. While we mainly evaluate the proposed method for neuroscientific data, we expect it to be applicable in a variety of fields that are concerned with the analysis of information transfer in complex biological, social, and artificial systems.Comment: 27 pages, 7 figures, submitted to PLOS ON

    Fitness landscape of the cellular automata majority problem: View from the Olympus

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    In this paper we study cellular automata (CAs) that perform the computational Majority task. This task is a good example of what the phenomenon of emergence in complex systems is. We take an interest in the reasons that make this particular fitness landscape a difficult one. The first goal is to study the landscape as such, and thus it is ideally independent from the actual heuristics used to search the space. However, a second goal is to understand the features a good search technique for this particular problem space should possess. We statistically quantify in various ways the degree of difficulty of searching this landscape. Due to neutrality, investigations based on sampling techniques on the whole landscape are difficult to conduct. So, we go exploring the landscape from the top. Although it has been proved that no CA can perform the task perfectly, several efficient CAs for this task have been found. Exploiting similarities between these CAs and symmetries in the landscape, we define the Olympus landscape which is regarded as the ''heavenly home'' of the best local optima known (blok). Then we measure several properties of this subspace. Although it is easier to find relevant CAs in this subspace than in the overall landscape, there are structural reasons that prevent a searcher from finding overfitted CAs in the Olympus. Finally, we study dynamics and performance of genetic algorithms on the Olympus in order to confirm our analysis and to find efficient CAs for the Majority problem with low computational cost

    Neural Distributed Autoassociative Memories: A Survey

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    Introduction. Neural network models of autoassociative, distributed memory allow storage and retrieval of many items (vectors) where the number of stored items can exceed the vector dimension (the number of neurons in the network). This opens the possibility of a sublinear time search (in the number of stored items) for approximate nearest neighbors among vectors of high dimension. The purpose of this paper is to review models of autoassociative, distributed memory that can be naturally implemented by neural networks (mainly with local learning rules and iterative dynamics based on information locally available to neurons). Scope. The survey is focused mainly on the networks of Hopfield, Willshaw and Potts, that have connections between pairs of neurons and operate on sparse binary vectors. We discuss not only autoassociative memory, but also the generalization properties of these networks. We also consider neural networks with higher-order connections and networks with a bipartite graph structure for non-binary data with linear constraints. Conclusions. In conclusion we discuss the relations to similarity search, advantages and drawbacks of these techniques, and topics for further research. An interesting and still not completely resolved question is whether neural autoassociative memories can search for approximate nearest neighbors faster than other index structures for similarity search, in particular for the case of very high dimensional vectors.Comment: 31 page

    Distributed Detection and Estimation in Wireless Sensor Networks

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    In this article we consider the problems of distributed detection and estimation in wireless sensor networks. In the first part, we provide a general framework aimed to show how an efficient design of a sensor network requires a joint organization of in-network processing and communication. Then, we recall the basic features of consensus algorithm, which is a basic tool to reach globally optimal decisions through a distributed approach. The main part of the paper starts addressing the distributed estimation problem. We show first an entirely decentralized approach, where observations and estimations are performed without the intervention of a fusion center. Then, we consider the case where the estimation is performed at a fusion center, showing how to allocate quantization bits and transmit powers in the links between the nodes and the fusion center, in order to accommodate the requirement on the maximum estimation variance, under a constraint on the global transmit power. We extend the approach to the detection problem. Also in this case, we consider the distributed approach, where every node can achieve a globally optimal decision, and the case where the decision is taken at a central node. In the latter case, we show how to allocate coding bits and transmit power in order to maximize the detection probability, under constraints on the false alarm rate and the global transmit power. Then, we generalize consensus algorithms illustrating a distributed procedure that converges to the projection of the observation vector onto a signal subspace. We then address the issue of energy consumption in sensor networks, thus showing how to optimize the network topology in order to minimize the energy necessary to achieve a global consensus. Finally, we address the problem of matching the topology of the network to the graph describing the statistical dependencies among the observed variables.Comment: 92 pages, 24 figures. To appear in E-Reference Signal Processing, R. Chellapa and S. Theodoridis, Eds., Elsevier, 201

    Unidimensional and Multidimensional Methods for Recurrence Quantification Analysis with crqa

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    Recurrence quantification analysis is a widely used method for characterizing patterns in time series. This article presents a comprehensive survey for conducting a wide range of recurrence-based analyses to quantify the dynamical structure of single and multivariate time series, and to capture coupling properties underlying leader-follower relationships. The basics of recurrence quantification analysis (RQA) and all its variants are formally introduced step-by-step from the simplest autorecurrence to the most advanced multivariate case. Importantly, we show how such RQA methods can be deployed under a single computational framework in R using a substantially renewed version our crqa 2.0 package. This package includes implementations of several recent advances in recurrence-based analysis, among them applications to multivariate data, and improved entropy calculations for categorical data. We show concrete applications of our package to example data, together with a detailed description of its functions and some guidelines on their usage
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