Visualizing fuzzy overlapping communities in networks

Are We There Yet? A Roadmap of Network Visualization from Surveys to Task Taxonomies

Networks are abstract and ubiquitous data structures, defined as a set of data points and relationships between them. Network visualization provides meaningful representations of these data, supporting researchers in understanding the connections, gathering insights, and detecting and identifying unexpected patterns. Research in this field is focusing on increasingly challenging problems, such as visualizing dynamic, complex, multivariate, and geospatial networked data. This ever-growing, and widely varied, body of research led to several surveys being published, each covering one or more disciplines of network visualization. Despite this effort, the variety and complexity of this research represents an obstacle when surveying the domain and building a comprehensive overview of the literature. Furthermore, there exists a lack of clarification and uniformity between the terminology used in each of the surveys, which requires further effort when mapping and categorizing the plethora of different visualization techniques and approaches. In this paper, we aim at providing researchers and practitioners alike with a "roadmap" detailing the current research trends in the field of network visualization. We design our contribution as a meta-survey where we discuss, summarize, and categorize recent surveys and task taxonomies published in the context of network visualization. We identify more and less saturated disciplines of research and consolidate the terminology used in the surveyed literature. We also survey the available task taxonomies, providing a comprehensive analysis of their varying support to each network visualization discipline and by establishing and discussing a classification for the individual tasks. With this combined analysis of surveys and task taxonomies, we provide an overarching structure of the field, from which we extrapolate the current state of research and promising directions for future work.

Uncertainty Visualization: Concepts, Methods, and Applications in Biological Data Visualization

This paper provides an overview of uncertainty visualization in general, along with specific examples of applications in bioinformatics. Starting from a processing and interaction pipeline of visualization, components are discussed that are relevant for handling and visualizing uncertainty introduced with the original data and at later stages in the pipeline, which shows the importance of making the stages of the pipeline aware of uncertainty and allowing them to propagate uncertainty. We detail concepts and methods for visual mappings of uncertainty, distinguishing between explicit and implict representations of distributions, different ways to show summary statistics, and combined or hybrid visualizations. The basic concepts are illustrated for several examples of graph visualization under uncertainty. Finally, this review paper discusses implications for the visualization of biological data and future research directions.

Automatic Polygon Layout for Primal-Dual Visualization of Hypergraphs

N-ary relationships, which relate $N$ entities where $N$ is not necessarily two, can be visually represented as polygons whose vertices are the entities of the relationships. Manually generating a high-quality layout using this representation is labor-intensive. In this paper, we provide an automatic polygon layout generation algorithm for the visualization of N-ary relationships. At the core of our algorithm is a set of objective functions motivated by a number of design principles that we have identified. These objective functions are then used in an optimization framework that we develop to achieve high-quality layouts. Recognizing the duality between entities and relationships in the data, we provide a second visualization in which the roles of entities and relationships in the original data are reversed. This can lead to additional insight about the data. Furthermore, we enhance our framework for a joint optimization on the primal layout (original data) and the dual layout (where the roles of entities and relationships are reversed). This allows users to inspect their data using two complementary views. We apply our visualization approach to a number of datasets that include co-authorship data and social contact pattern data.

Visualizing Uncertainty in Probabilistic Graphs with Network Hypothetical Outcome Plots (NetHOPs)

Probabilistic graphs are challenging to visualize using the traditional node-link diagram. Encoding edge probability using visual variables like width or fuzziness makes it difficult for users of static network visualizations to estimate network statistics like densities, isolates, path lengths, or clustering under uncertainty. We introduce Network Hypothetical Outcome Plots (NetHOPs), a visualization technique that animates a sequence of network realizations sampled from a network distribution defined by probabilistic edges. NetHOPs employ an aggregation and anchoring algorithm used in dynamic and longitudinal graph drawing to parameterize layout stability for uncertainty estimation. We present a community matching algorithm to enable visualizing the uncertainty of cluster membership and community occurrence. We describe the results of a study in which 51 network experts used NetHOPs to complete a set of common visual analysis tasks and reported how they perceived network structures and properties subject to uncertainty. Participants' estimates fell, on average, within 11% of the ground truth statistics, suggesting NetHOPs can be a reasonable approach for enabling network analysts to reason about multiple properties under uncertainty. Participants appeared to articulate the distribution of network statistics slightly more accurately when they could manipulate the layout anchoring and the animation speed. Based on these findings, we synthesize design recommendations for developing and using animated visualizations for probabilistic networks.

Visual Analytics for Topic Model Optimization based on User-Steerable Speculative Execution

To effectively assess the potential consequences of human interventions in model-driven analytics systems, we establish the concept of speculative execution as a visual analytics paradigm for creating user-steerable preview mechanisms. This paper presents an explainable, mixed-initiative topic modeling framework that integrates speculative execution into the algorithmic decisionmaking process. Our approach visualizes the model-space of our novel incremental hierarchical topic modeling algorithm, unveiling its inner-workings. We support the active incorporation of the user's domain knowledge in every step through explicit model manipulation interactions. In addition, users can initialize the model with expected topic seeds, the backbone priors. For a more targeted optimization, the modeling process automatically triggers a speculative execution of various optimization strategies, and requests feedback whenever the measured model quality deteriorates. Users compare the proposed optimizations to the current model state and preview their effect on the next model iterations, before applying one of them. This supervised human-in-the-loop process targets maximum improvement for minimum feedback and has proven to be effective in three independent studies that confirm topic model quality improvements.

Bubble Treemaps for Uncertainty Visualization

We present a novel type of circular treemap, where we intentionally allocate extra space for additional visual variables. With this extended visual design space, we encode hierarchically structured data along with their uncertainties in a combined diagram. We introduce a hierarchical and force-based circle-packing algorithm to compute Bubble Treemaps, where each node is visualized using nested contour arcs. Bubble Treemaps do not require any color or shading, which offers additional design choices. We explore uncertainty visualization as an application of our treemaps using standard error and Monte Carlo-based statistical models. To this end, we discuss how uncertainty propagates within hierarchies. Furthermore, we show the effectiveness of our visualization using three different examples: the package structure of Flare, the S&P 500 index, and the US consumer expenditure survey.

Brain Modulyzer: Interactive Visual Analysis of Functional Brain Connectivity

We present Brain Modulyzer, an interactive visual exploration tool for functional magnetic resonance imaging (fMRI) brain scans, aimed at analyzing the correlation between different brain regions when resting or when performing mental tasks. Brain Modulyzer combines multiple coordinated views-such as heat maps, node link diagrams and anatomical views-using brushing and linking to provide an anatomical context for brain connectivity data. Integrating methods from graph theory and analysis, e.g., community detection and derived graph measures, makes it possible to explore the modular and hierarchical organization of functional brain networks. Providing immediate feedback by displaying analysis results instantaneously while changing parameters gives neuroscientists a powerful means to comprehend complex brain structure more effectively and efficiently and supports forming hypotheses that can then be validated via statistical analysis. To demonstrate the utility of our tool, we present two case studies-exploring progressive supranuclear palsy, as well as memory encoding and retrieval.

Evaluation of Graph Sampling: A Visualization Perspective

Graph sampling is frequently used to address scalability issues when analyzing large graphs. Many algorithms have been proposed to sample graphs, and the performance of these algorithms has been quantified through metrics based on graph structural properties preserved by the sampling: degree distribution, clustering coefficient, and others. However, a perspective that is missing is the impact of these sampling strategies on the resultant visualizations. In this paper, we present the results of three user studies that investigate how sampling strategies influence node-link visualizations of graphs. In particular, five sampling strategies widely used in the graph mining literature are tested to determine how well they preserve visual features in node-link diagrams. Our results show that depending on the sampling strategy used different visual features are preserved. These results provide a complimentary view to metric evaluations conducted in the graph mining literature and provide an impetus to conduct future visualization studies.

Probabilistic Graph Layout for Uncertain Network Visualization

We present a novel uncertain network visualization technique based on node-link diagrams. Nodes expand spatially in our probabilistic graph layout, depending on the underlying probability distributions of edges. The visualization is created by computing a two-dimensional graph embedding that combines samples from the probabilistic graph. A Monte Carlo process is used to decompose a probabilistic graph into its possible instances and to continue with our graph layout technique. Splatting and edge bundling are used to visualize point clouds and network topology. The results provide insights into probability distributions for the entire network-not only for individual nodes and edges. We validate our approach using three data sets that represent a wide range of network types: synthetic data, protein-protein interactions from the STRING database, and travel times extracted from Google Maps. Our approach reveals general limitations of the force-directed layout and allows the user to recognize that some nodes of the graph are at a specific position just by chance.

Typology of Uncertainty in Static Geolocated Graphs for Visualization

Static geolocated graphs have nodes connected by edges, where both can have geographic location and associated attributes. For example, it can be uncertain exactly where a node is located or whether an edge between two nodes exists. Because source data is often incomplete or inexact, it is necessary to visualize this uncertainty to help users make appropriate decisions. The proposed typology of uncertainty extends related typologies with specific features needed for characterizing uncertainty in static geolocated graphs.

An Uncertainty-Aware Approach for Exploratory Microblog Retrieval

Although there has been a great deal of interest in analyzing customer opinions and breaking news in microblogs, progress has been hampered by the lack of an effective mechanism to discover and retrieve data of interest from microblogs. To address this problem, we have developed an uncertainty-aware visual analytics approach to retrieve salient posts, users, and hashtags. We extend an existing ranking technique to compute a multifaceted retrieval result: the mutual reinforcement rank of a graph node, the uncertainty of each rank, and the propagation of uncertainty among different graph nodes. To illustrate the three facets, we have also designed a composite visualization with three visual components: a graph visualization, an uncertainty glyph, and a flow map. The graph visualization with glyphs, the flow map, and the uncertainty analysis together enable analysts to effectively find the most uncertain results and interactively refine them. We have applied our approach to several Twitter datasets. Qualitative evaluation and two real-world case studies demonstrate the promise of our approach for retrieving high-quality microblog data.