Detecting the community structure and activity patterns of temporal networks: a non-negative tensor factorization approach

The increasing availability of temporal network data is calling for more research on extracting and characterizing mesoscopic structures in temporal networks and on relating such structure to specific functions or properties of the system. An outstanding challenge is the extension of the results achieved for static networks to time-varying networks, where the topological structure of the system and the temporal activity patterns of its components are intertwined. Here we investigate the use of a latent factor decomposition technique, non-negative tensor factorization, to extract the community-activity structure of temporal networks. The method is intrinsically temporal and allows to simultaneously identify communities and to track their activity over time. We represent the time-varying adjacency matrix of a temporal network as a three-way tensor and approximate this tensor as a sum of terms that can be interpreted as communities of nodes with an associated activity time series. We summarize known computational techniques for tensor decomposition and discuss some quality metrics that can be used to tune the complexity of the factorized representation. We subsequently apply tensor factorization to a temporal network for which a ground truth is available for both the community structure and the temporal activity patterns. The data we use describe the social interactions of students in a school, the associations between students and school classes, and the spatio-temporal trajectories of students over time. We show that non-negative tensor factorization is capable of recovering the class structure with high accuracy. In particular, the extracted tensor components can be validated either as known school classes, or in terms of correlated activity patterns, i.e., of spatial and temporal coincidences that are determined by the known school activity schedule

Disk Covering Methods Improve Phylogenomic Analyses

Motivation: With the rapid growth rate of newly sequenced genomes, species tree inference from multiple genes has become a basic bioinformatics task in comparative and evolutionary biology. However, accurate species tree estimation is difficult in the presence of gene tree discordance, which is often due to incomplete lineage sorting (ILS), modelled by the multi-species coalescent. Several highly accurate coalescent-based species tree estimation methods have been developed over the last decade, including MP-EST. However, the running time for MP-EST increases rapidly as the number of species grows. Results: We present divide-and-conquer techniques that improve the scalability of MP-EST so that it can run efficiently on large datasets. Surprisingly, this technique also improves the accuracy of species trees estimated by MP-EST, as our study shows on a collection of simulated and biological datasets.NSF DEB 0733029, DBI 1062335Computer Science

Efficient Multi-Robot Coverage of a Known Environment

This paper addresses the complete area coverage problem of a known environment by multiple-robots. Complete area coverage is the problem of moving an end-effector over all available space while avoiding existing obstacles. In such tasks, using multiple robots can increase the efficiency of the area coverage in terms of minimizing the operational time and increase the robustness in the face of robot attrition. Unfortunately, the problem of finding an optimal solution for such an area coverage problem with multiple robots is known to be NP-complete. In this paper we present two approximation heuristics for solving the multi-robot coverage problem. The first solution presented is a direct extension of an efficient single robot area coverage algorithm, based on an exact cellular decomposition. The second algorithm is a greedy approach that divides the area into equal regions and applies an efficient single-robot coverage algorithm to each region. We present experimental results for two algorithms. Results indicate that our approaches provide good coverage distribution between robots and minimize the workload per robot, meanwhile ensuring complete coverage of the area.Comment: In proceedings of IEEE/RSJ International Conference on Intelligent Robots and Systems (IROS), 201

Joint Video and Text Parsing for Understanding Events and Answering Queries

We propose a framework for parsing video and text jointly for understanding events and answering user queries. Our framework produces a parse graph that represents the compositional structures of spatial information (objects and scenes), temporal information (actions and events) and causal information (causalities between events and fluents) in the video and text. The knowledge representation of our framework is based on a spatial-temporal-causal And-Or graph (S/T/C-AOG), which jointly models possible hierarchical compositions of objects, scenes and events as well as their interactions and mutual contexts, and specifies the prior probabilistic distribution of the parse graphs. We present a probabilistic generative model for joint parsing that captures the relations between the input video/text, their corresponding parse graphs and the joint parse graph. Based on the probabilistic model, we propose a joint parsing system consisting of three modules: video parsing, text parsing and joint inference. Video parsing and text parsing produce two parse graphs from the input video and text respectively. The joint inference module produces a joint parse graph by performing matching, deduction and revision on the video and text parse graphs. The proposed framework has the following objectives: Firstly, we aim at deep semantic parsing of video and text that goes beyond the traditional bag-of-words approaches; Secondly, we perform parsing and reasoning across the spatial, temporal and causal dimensions based on the joint S/T/C-AOG representation; Thirdly, we show that deep joint parsing facilitates subsequent applications such as generating narrative text descriptions and answering queries in the forms of who, what, when, where and why. We empirically evaluated our system based on comparison against ground-truth as well as accuracy of query answering and obtained satisfactory results