Strengthening ties towards a highly-connected world

Online social networks provide a forum where people make new connections, learn more about the world, get exposed to different points of view, and access information that were previously inaccessible. It is natural to assume that content-delivery algorithms in social networks should not only aim to maximize user engagement but also to offer opportunities for increasing connectivity and enabling social networks to achieve their full potential. Our motivation and aim is to develop methods that foster the creation of new connections, and subsequently, improve the flow of information in the network. To achieve our goal, we propose to leverage the strong triadic closure principle, and consider violations to this principle as opportunities for creating more social links. We formalize this idea as an algorithmic problem related to the densest k-subgraph problem. For this new problem, we establish hardness results and propose approximation algorithms. We identify two special cases of the problem that admit a constant-factor approximation. Finally, we experimentally evaluate our proposed algorithm on real-world social networks, and we additionally evaluate some simpler but more scalable algorithms.

AOI-shapes: An Efficient Footprint Algorithm to Support Visualization of User-defined Urban Areas of Interest

Understanding urban areas of interest (AOIs) is essential in many real-life scenarios, and such AOIs can be computed based on the geographic points that satisfy user queries. In this article, we study the problem of efficient and effective visualization of user-defined urban AOIs in an interactive manner. In particular, we first define the problem of user-defined AOI visualization based on a real estate data visualization scenario, and we illustrate why a novel footprint method is needed to support the visualization. After extensively reviewing existing “footprint” methods, we propose a parameter-free footprint method, named AOI-shapes, to capture the boundary information of a user-defined urban AOI. Next, to allow interactive query refinements by the user, we propose two efficient and scalable algorithms to incrementally generate urban AOIs by reusing existing visualization results. Finally, we conduct extensive experiments with both synthetic and real-world datasets to demonstrate the quality and efficiency of the proposed methods.

Functional observability and target state estimation in large-scale networks

The quantitative understanding and precise control of complex dynamical systems can only be achieved by observing their internal states via measurement and/or estimation. In large-scale dynamical networks, it is often difficult or physically impossible to have enough sensor nodes to make the system fully observable. Even if the system is in principle observable, high dimensionality poses fundamental limits on the computational tractability and performance of a full-state observer. To overcome the curse of dimensionality, we instead require the system to be functionally observable, meaning that a targeted subset of state variables can be reconstructed from the available measurements. Here, we develop a graph-based theory of functional observability, which leads to highly scalable algorithms to 1) determine the minimal set of required sensors and 2) design the corresponding state observer of minimum order. Compared with the full-state observer, the proposed functional observer achieves the same estimation quality with substantially less sensing and fewer computational resources, making it suitable for large-scale networks. We apply the proposed methods to the detection of cyberattacks in power grids from limited phase measurement data and the inference of the prevalence rate of infection during an epidemic under limited testing conditions. The applications demonstrate that the functional observer can significantly scale up our ability to explore otherwise inaccessible dynamical processes on complex networks.

Attraction Basins in Metaheuristics: A Systematic Mapping Study

Context: In this study, we report on a Systematic Mapping Study (SMS) for attraction basins in the domain of metaheuristics. Objective: To identify research trends, potential issues, and proposed solutions on attraction basins in the field of metaheuristics. Research goals were inspired by the previous paper, published in 2021, where attraction basins were used to measure exploration and exploitation. Method: We conducted the SMS in the following steps: Defining research questions, conducting the search in the ISI Web of Science and Scopus databases, full-text screening, iterative forward and backward snowballing (with ongoing full-text screening), classifying, and data extraction. Results: Attraction basins within discrete domains are understood far better than those within continuous domains. Attraction basins on dynamic problems have hardly been investigated. Multi-objective problems are investigated poorly in both domains, although slightly more often within a continuous domain. There is a lack of parallel and scalable algorithms to compute attraction basins and a general framework that would unite all different definitions/implementations used for attraction basins. Conclusions: Findings regarding attraction basins in the field of metaheuristics reveal that the concept alone is poorly exploited, as well as identify open issues where researchers may improve their research.

ODGI: understanding pangenome graphs

Motivation: Pangenome graphs provide a complete representation of the mutual alignment of collections of genomes. These models offer the opportunity to study the entire genomic diversity of a population, including structurally complex regions. Nevertheless, analyzing hundreds of gigabase-scale genomes using pangenome graphs is difficult as it is not well-supported by existing tools. Hence, fast and versatile software is required to ask advanced questions to such data in an efficient way. Results: We wrote ODGI, a novel suite of tools that implements scalable algorithms and has an efficient in-memory representation of DNA variation graphs. ODGI includes tools for detecting complex regions, extracting loci, removing artifacts, exploratory analysis, manipulation, validation, and visualization. Its fast parallel execution facilitates routine pangenomic tasks, as well as pipelines that can quickly answer complex biological questions of gigabase-scale pangenome graphs. Availability: ODGI is published as free software under the MIT open source license. Source code can be downloaded from https://github.com/pangenome/odgi and documentation is available at https://odgi.readthedocs.io. ODGI can be installed via Bioconda https: //bioconda.github.io/recipes/odgi/README.html or GNU Guix https://github.com/ ekg/guix-genomics/blob/master/odgi.scm.

A Consensus Algorithm for Linear Support Vector Machines

In the era of big data, an important weapon in a machine learning researcher’s arsenal is a scalable support vector machine (SVM) algorithm. Traditional algorithms for learning SVMs scale superlinearly with the training set size, which becomes infeasible quickly for large data sets. In recent years, scalable algorithms have been designed which study the primal or dual formulations of the problem. These often suggest a way to decompose the problem and facilitate development of distributed algorithms. In this paper, we present a distributed algorithm for learning linear SVMs in the primal form for binary classification called the gossip-based subgradient (GADGET) SVM. The algorithm is designed such that it can be executed locally on sites of a distributed system. Each site processes its local homogeneously partitioned data and learns a primal SVM model; it then gossips with random neighbors about the classifier learnt and uses this information to update the model. To learn the model, the SVM optimization problem is solved using several techniques, including a gradient estimation procedure, stochastic gradient descent method, and several variants including minibatches of varying sizes. Our theoretical results indicate that the rate at which the GADGET SVM algorithm converges to the global optimum at each site is dominated by an [Formula: see text] term, where λ measures the degree of convexity of the function at the site. Empirical results suggest that this anytime algorithm—where the quality of results improve gradually as computation time increases—has performance comparable to its centralized, pseudodistributed, and other state-of-the-art gossip-based SVM solvers. It is at least 1.5 times (often several orders of magnitude) faster than other gossip-based SVM solvers known in literature and has a message complexity of O(d) per iteration, where d represents the number of features of the data set. Finally, a large-scale case study is presented wherein the consensus-based SVM algorithm is used to predict failures of advanced mechanical components in a chocolate manufacturing process using more than one million data points. This paper was accepted by J. George Shanthikumar, big data analytics.