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Optimizing the performance of large-scale parallel codes is critical for efficient utilization of computing resources. Code developers often explore various execution parameters, such as hardware configurations, system software choices, and application parameters, and are interested in detecting and understanding bottlenecks in different executions. They often collect hierarchical performance profiles represented as call graphs, which combine performance metrics with their execution contexts. The crucial task of exploring multiple call graphs together is tedious and challenging because of the many structural differences in the execution contexts and significant variability in the collected performance metrics (e.g., execution runtime). In this paper, we present EnsembleCallFlow to support the exploration of ensembles of call graphs using new types of visualizations, analysis, graph operations, and features. We introduce ensemble-Sankey, a new visual design that combines the strengths of resource-flow (Sankey) and box-plot visualization techniques. Whereas the resource-flow visualization can easily and intuitively describe the graphical nature of the call graph, the box plots overlaid on the nodes of Sankey convey the performance variability within the ensemble. Our interactive visual interface provides linked views to help explore ensembles of call graphs, e.g., by facilitating the analysis of structural differences, and identifying similar or distinct call graphs. We demonstrate the effectiveness and usefulness of our design through case studies on large-scale parallel codes.

Spatial statistical analysis of multivariate volumetric data can be challenging due to scale, complexity, and occlusion. Advances in topological segmentation, feature extraction, and statistical summarization have helped overcome the challenges. This work introduces a new spatial statistical decomposition method based on level sets, connected components, and a novel variation of the restricted centroidal Voronoi tessellation that is better suited for spatial statistical decomposition and parallel efficiency. The resulting data structures organize features into a coherent nested hierarchy to support flexible and efficient out-of-core region-of-interest extraction. Next, we provide an efficient parallel implementation. Finally, an interactive visualization system based on this approach is designed and then applied to turbulent combustion data. The combined approach enables an interactive spatial statistical analysis workflow for large-scale data with a top-down approach through multiple-levels-of-detail that links phase space statistics with spatial features.

Vision transformer (ViT) expands the success of transformer models from sequential data to images. The model decomposes an image into many smaller patches and arranges them into a sequence. Multi-head self-attentions are then applied to the sequence to learn the attention between patches. Despite many successful interpretations of transformers on sequential data, little effort has been devoted to the interpretation of ViTs, and many questions remain unanswered. For example, among the numerous attention heads, which one is more important? How strong are individual patches attending to their spatial neighbors in different heads? What attention patterns have individual heads learned? In this work, we answer these questions through a visual analytics approach. Specifically, we first identify what heads are more important in ViTs by introducing multiple pruning-based metrics. Then, we profile the spatial distribution of attention strengths between patches inside individual heads, as well as the trend of attention strengths across attention layers. Third, using an autoencoder-based learning solution, we summarize all possible attention patterns that individual heads could learn. Examining the attention strengths and patterns of the important heads, we answer why they are important. Through concrete case studies with experienced deep learning experts on multiple ViTs, we validate the effectiveness of our solution that deepens the understanding of ViTs from head importance, head attention strength, and head attention pattern., Comment: Accepted by PacificVis 2023 and selected to be published in TVCG

Real-world machine learning applications need to be thoroughly evaluated to meet critical product requirements for model release, to ensure fairness for different groups or individuals, and to achieve a consistent performance in various scenarios. For example, in autonomous driving, an object classification model should achieve high detection rates under different conditions of weather, distance, etc. Similarly, in the financial setting, credit-scoring models must not discriminate against minority groups. These conditions or groups are called as "Data Slices". In product MLOps cycles, product developers must identify such critical data slices and adapt models to mitigate data slice problems. Discovering where models fail, understanding why they fail, and mitigating these problems, are therefore essential tasks in the MLOps life-cycle. In this paper, we present SliceTeller , a novel tool that allows users to debug, compare and improve machine learning models driven by critical data slices. SliceTeller automatically discovers problematic slices in the data, helps the user understand why models fail. More importantly, we present an efficient algorithm, SliceBoosting, to estimate trade-offs when prioritizing the optimization over certain slices. Furthermore, our system empowers model developers to compare and analyze different model versions during model iterations, allowing them to choose the model version best suitable for their applications. We evaluate our system with three use cases, including two real-world use cases of product development, to demonstrate the power of SliceTeller in the debugging and improvement of product-quality ML models.

We conduct an eye tracking study to investigate perception text-embellished narrative visualizations under different task conditions. Study stimuli are data visualizations embellished with text-based elements: annotations, captions, labels, and descriptive text. We consider three common viewing tasks that occur when these types of graphics are viewed: (1) simple observation, (2) active search to answer a query, and (3) information memorization for later recall. The overarching goal is to understand, at a perceptual level, if and how task affects how these visualizations are interacted with. By analyzing collected gaze data and conducting advanced semantic scanpath analysis, we find, at a high level, diverse patterns of gaze behavior: simple observation and information memorization lead to similar optical viewing strategies, while active search significantly diverges, both in regards to which areas of the visualization are focused upon and how often embellishments are interacted with. We discuss study outcomes in the context of embellishing visualizations with text for various usage scenarios.

There is a growing trend of applying machine learning methods to medical datasets in order to predict patients' future status. Although some of these methods achieve high performance, challenges still exist in comparing and evaluating different models through their interpretable information. Such analytics can help clinicians improve evidence-based medical decision making. In this work, we develop a visual analytics system that compares multiple models' prediction criteria and evaluates their consistency. With our system, users can generate knowledge on different models' inner criteria and how confidently we can rely on each model's prediction for a certain patient. Through a case study of a publicly available clinical dataset, we demonstrate the effectiveness of our visual analytics system to assist clinicians and researchers in comparing and quantitatively evaluating different machine learning methods., This is the author's version of the article that has been accepted to PacificVis 2020 Visualization Meets AI Workshop

The development of usable visualization solutions is essential for ensuring both their adoption and effectiveness. User-centered design principles, which involve users throughout the entire development process, have been shown to be effective in numerous information visualization endeavors. We describe how we applied these principles in scientific visualization over a two year collaboration to develop a hybrid in situ/post hoc solution tailored towards combustion researcher needs. Furthermore, we examine the importance of user-centered design and lessons learned over the design process in an effort to aid others seeking to develop effective scientific visualization solutions.

Machine learning for data-driven diagnosis has been actively studied in medicine to provide better healthcare. Supporting analysis of a patient cohort similar to a patient under treatment is a key task for clinicians to make decisions with high confidence. However, such analysis is not straightforward due to the characteristics of medical records: high dimensionality, irregularity in time, and sparsity. To address this challenge, we introduce a method for similarity calculation of medical records. Our method employs event and sequence embeddings. While we use an autoencoder for the event embedding, we apply its variant with the self-attention mechanism for the sequence embedding. Moreover, in order to better handle the irregularity of data, we enhance the self-attention mechanism with consideration of different time intervals. We have developed a visual analytics system to support comparative studies of patient records. To make a comparison of sequences with different lengths easier, our system incorporates a sequence alignment method. Through its interactive interface, the user can quickly identify patients of interest and conveniently review both the temporal and multivariate aspects of the patient records. We demonstrate the effectiveness of our design and system with case studies using a real-world dataset from the neonatal intensive care unit of UC Davis., Comment: This is the author's version of the article that has been accepted in PacificVis 2020 Visualization Meets AI Workshop

We present P4, an information visualization toolkit that combines declarative design specification and GPU computing for building high-performance interactive systems. Most of the existing information visualization toolkits do not harness the power of parallel processors in today's mainstream computers. P4 leverages GPU computing to accelerate both data processing and visualization rendering for interactive visualization applications. P4's programming interface offers a declarative visualization grammar for rapid specifications of data transformations, visual encodings, and interactions. By simplifying the development of GPU-accelerated visualization systems while supporting a high degree of flexibility and customization for design specification, P4 narrows the gap between expressiveness and scalability in information visualization toolkits. Through a range of examples and benchmark tests, we demonstrate that P4 provides high efficiency for creating interactive visualizations and offers drastic performance improvement over current state-of-the-art toolkits.

Dimensionality reduction (DR) methods are commonly used for analyzing and visualizing multidimensional data. However, when data is a live streaming feed, conventional DR methods cannot be directly used because of their computational complexity and inability to preserve the projected data positions at previous time points. In addition, the problem becomes even more challenging when the dynamic data records have a varying number of dimensions as often found in real-world applications. This paper presents an incremental DR solution. We enhance an existing incremental PCA method in several ways to ensure its usability for visualizing streaming multidimensional data. First, we use geometric transformation and animation methods to help preserve a viewer's mental map when visualizing the incremental results. Second, to handle data dimension variants, we use an optimization method to estimate the projected data positions, and also convey the resulting uncertainty in the visualization. We demonstrate the effectiveness of our design with two case studies using real-world datasets., Comment: This is the author's version of the article that has been published in IEEE Transactions on Visualization and Computer Graphics. The final version of this record is available at: 10.1109/TVCG.2019.2934433

The rapid development of Convolutional Neural Networks (CNNs) in recent years has triggered significant breakthroughs in many machine learning (ML) applications. The ability to understand and compare various CNN models available is thus essential. The conventional approach with visualizing each model's quantitative features, such as classification accuracy and computational complexity, is not sufficient for a deeper understanding and comparison of the behaviors of different models. Moreover, most of the existing tools for assessing CNN behaviors only support comparison between two models and lack the flexibility of customizing the analysis tasks according to user needs. This paper presents a visual analytics system, VAC-CNN (Visual Analytics for Comparing CNNs), that supports the in-depth inspection of a single CNN model as well as comparative studies of two or more models. The ability to compare a larger number of (e.g., tens of) models especially distinguishes our system from previous ones. With a carefully designed model visualization and explaining support, VAC-CNN facilitates a highly interactive workflow that promptly presents both quantitative and qualitative information at each analysis stage. We demonstrate VAC-CNN's effectiveness for assisting novice ML practitioners in evaluating and comparing multiple CNN models through two use cases and one preliminary evaluation study using the image classification tasks on the ImageNet dataset., 12 pages, 6 figures. This manuscript is currently under review

Face sketch synthesis shows great applications in a lot of fields such as online entertainment and suspects identification. Existing face sketch synthesis methods learn the patch-wise sketch style from the training dataset containing photo-sketch pairs. These methods manipulate the whole process directly in the field of RGB space, which unavoidably results in unsmooth noises at patch boundaries. If denoising methods are used, the sketch edges would be blurred and face structures could not be restored. Recent researches of feature maps, which are the outputs of a certain neural network layer, have achieved great success in texture synthesis and artistic image generation. In this paper, we reformulate the face sketch synthesis problem into a neural network feature maps based optimization task. Our results accurately capture the sketch drawing style and make full use of the whole stylistic information hidden in the training dataset. Unlike former feature map based methods, we utilize the Enhanced 3D PatchMatch and cross-layer cost aggregation methods to obtain the target feature maps for the final results. Multiple experiments have shown that our approach imitates hand-drawn sketch style vividly, and has high-quality visual effects on CUHK, AR, XM2VTS and CUFSF face sketch datasets.

Analyzing social networks reveals the relationships between individuals and groups in the data. However, such analysis can also lead to privacy exposure (whether intentionally or inadvertently): leaking the real-world identity of ostensibly anonymous individuals. Most sanitization strategies modify the graph's structure based on hypothesized tactics that an adversary would employ. While combining multiple anonymization schemes provides a more comprehensive privacy protection, deciding the appropriate set of techniques—along with evaluating how applying the strategies will affect the utility of the anonymized results-remains a significant challenge. To address this problem, we introduce GraphProtector , a visual interface that guides a user through a privacy preservation pipeline. GraphProtector enables multiple privacy protection schemes which can be simultaneously combined together as a hybrid approach. To demonstrate the effectiveness of GraphPro tector, we report several case studies and feedback collected from interviews with expert users in various scenarios.

Visual data storytelling is gaining importance as a means of presenting data-driven information or analysis results, especially to the general public. This has resulted in design principles being proposed for data-driven storytelling, and new authoring tools being created to aid such storytelling. However, data analysts typically lack sufficient background in design and storytelling to make effective use of these principles and authoring tools. To assist this process, we present ChartStory for crafting data stories from a collection of user-created charts, using a style akin to comic panels to imply the underlying sequence and logic of data-driven narratives. Our approach is to operationalize established design principles into an advanced pipeline which characterizes charts by their properties and similarity, and recommends ways to partition, layout, and caption story pieces to serve a narrative. ChartStory also augments this pipeline with intuitive user interactions for visual refinement of generated data comics. We extensively and holistically evaluate ChartStory via a trio of studies. We first assess how the tool supports data comic creation in comparison to a manual baseline tool. Data comics from this study are subsequently compared and evaluated to ChartStory's automated recommendations by a team of narrative visualization practitioners. This is followed by a pair of interview studies with data scientists using their own datasets and charts who provide an additional assessment of the system. We find that ChartStory provides cogent recommendations for narrative generation, resulting in data comics that compare favorably to manually-created ones.

Depending on the node ordering, an adjacency matrix can highlight distinct characteristics of a graph. Deriving a "proper" node ordering is thus a critical step in visualizing a graph as an adjacency matrix. Users often try multiple matrix reorderings using different methods until they find one that meets the analysis goal. However, this trial-and-error approach is laborious and disorganized, which is especially challenging for novices. This paper presents a technique that enables users to effortlessly find a matrix reordering they want. Specifically, we design a generative model that learns a latent space of diverse matrix reorderings of the given graph. We also construct an intuitive user interface from the learned latent space by creating a map of various matrix reorderings. We demonstrate our approach through quantitative and qualitative evaluations of the generated reorderings and learned latent spaces. The results show that our model is capable of learning a latent space of diverse matrix reorderings. Most existing research in this area generally focused on developing algorithms that can compute "better" matrix reorderings for particular circumstances. This paper introduces a fundamentally new approach to matrix visualization of a graph, where a machine learning model learns to generate diverse matrix reorderings of a graph., Comment: IEEE Transactions on Visualization and Computer Graphics

Finding the similarities and differences between groups of datasets is a fundamental analysis task. For high-dimensional data, dimensionality reduction (DR) methods are often used to find the characteristics of each group. However, existing DR methods provide limited capability and flexibility for such comparative analysis as each method is designed only for a narrow analysis target, such as identifying factors that most differentiate groups. This paper presents an interactive DR framework where we integrate our new DR method, called ULCA (unified linear comparative analysis), with an interactive visual interface. ULCA unifies two DR schemes, discriminant analysis and contrastive learning, to support various comparative analysis tasks. To provide flexibility for comparative analysis, we develop an optimization algorithm that enables analysts to interactively refine ULCA results. Additionally, the interactive visualization interface facilitates interpretation and refinement of the ULCA results. We evaluate ULCA and the optimization algorithm to show their efficiency as well as present multiple case studies using real-world datasets to demonstrate the usefulness of this framework., Comment: This is the author's version of the article that has been published in IEEE Transactions on Visualization and Computer Graphics. The final version of this record is available at: 10.1109/TVCG.2021.3114807

The term “in situ processing” has evolved over the last decade to mean both a specific strategy for visualizing and analyzing data and an umbrella term for a processing paradigm. The resulting confusion makes it difficult for visualization and analysis scientists to communicate with each other and with their stakeholders. To address this problem, a group of over 50 experts convened with the goal of standardizing terminology. This paper summarizes their findings and proposes a new terminology for describing in situ systems. An important finding from this group was that in situ systems are best described via multiple, distinct axes: integration type, proximity, access, division of execution, operation controls, and output type. This paper discusses these axes, evaluates existing systems within the axes, and explores how currently used terms relate to the axes.

We present P6, a declarative language for building high performance visual analytics systems through its support for specifying and integrating machine learning and interactive visualization methods. As data analysis methods based on machine learning and artificial intelligence continue to advance, a visual analytics solution can leverage these methods for better exploiting large and complex data. However, integrating machine learning methods with interactive visual analysis is challenging. Existing declarative programming libraries and toolkits for visualization lack support for coupling machine learning methods. By providing a declarative language for visual analytics, P6 can empower more developers to create visual analytics applications that combine machine learning and visualization methods for data analysis and problem solving. Through a variety of example applications, we demonstrate P6's capabilities and show the benefits of using declarative specifications to build visual analytics systems. We also identify and discuss the research opportunities and challenges for declarative visual analytics., Comment: Accepted for presentation at IEEE VIS 2020

We examine the process of designing an exhibit to communicate scientific findings from a complex dataset and unfamiliar domain to the public in a science museum. Our exhibit sought to communicate new lessons based on scientific findings from the domain of metagenomics. This multi-user exhibit had three goals: (1) to inform the public about microbial communities and their daily cycles; (2) to link microbes' activity to the concept of gene expression; (3) and to highlight scientists' use of gene expression data to understand the role of microbes. To address these three goals, we derived visualization designs with three corresponding stories, each corresponding to a goal. We present three successive rounds of design and evaluation of our attempts to convey these goals. We could successfully present one story but had limited success with our second and third goals. This work presents a detailed account of an attempt to explain tightly coupled relationships through storytelling and animation in a multi-user, informal learning environment to a public with varying prior knowledge on the domain and identify lessons for future design.

Diffusion tensor imaging (DTI) has been used to study the effects of neurodegenerative diseases on neural pathways, which may lead to more reliable and early diagnosis of these diseases as well as a better understanding of how they affect the brain. We introduce a predictive visual analytics system for studying patient groups based on their labeled DTI fiber tract data and corresponding statistics. The systems machine-learning-augmented interface guides the user through an organized and holistic analysis space, including the statistical feature space, the physical space, and the space of patients over different groups. We use a custom machine learning pipeline to help narrow down this large analysis space and then explore it pragmatically through a range of linked visualizations. We conduct several case studies using DTI and T1-weighted images from the research database of Parkinsons Progression Markers Initiative.

Data-driven problem solving in many real-world applications involves analysis of time-dependent multivariate data, for which dimensionality reduction (DR) methods are often used to uncover the intrinsic structure and features of the data. However, DR is usually applied to a subset of data that is either single-time-point multivariate or univariate time-series, resulting in the need to manually examine and correlate the DR results out of different data subsets. When the number of dimensions is large either in terms of the number of time points or attributes, this manual task becomes too tedious and infeasible. In this paper, we present MulTiDR, a new DR framework that enables processing of time-dependent multivariate data as a whole to provide a comprehensive overview of the data. With the framework, we employ DR in two steps. When treating the instances, time points, and attributes of the data as a 3D array, the first DR step reduces the three axes of the array to two, and the second DR step visualizes the data in a lower-dimensional space. In addition, by coupling with a contrastive learning method and interactive visualizations, our framework enhances analysts' ability to interpret DR results. We demonstrate the effectiveness of our framework with four case studies using real-world datasets., Comment: This is the author's version of the article that has been published in IEEE Transactions on Visualization and Computer Graphics. The final version of this record is available at: 10.1109/TVCG.2020.3028889

Dynamic networks -- networks that change over time -- can be categorized into two types: offline dynamic networks, where all states of the network are known, and online dynamic networks, where only the past states of the network are known. Research on staging animated transitions in dynamic networks has focused more on offline data, where rendering strategies can take into account past and future states of the network. Rendering online dynamic networks is a more challenging problem since it requires a balance between timeliness for monitoring tasks -- so that the animations do not lag too far behind the events -- and clarity for comprehension tasks -- to minimize simultaneous changes that may be difficult to follow. To illustrate the challenges placed by these requirements, we explore three strategies to stage animations for online dynamic networks: time-based, event-based, and a new hybrid approach that we introduce by combining the advantages of the first two. We illustrate the advantages and disadvantages of each strategy in representing low- and high-throughput data and conduct a user study involving monitoring and comprehension of dynamic networks. We also conduct a follow-up, a think-aloud study combining monitoring and comprehension with experts in dynamic network visualization. Our findings show that animation staging strategies that emphasize comprehension do better for participant response times and accuracy. However, the notion of ``comprehension'' is not always clear when it comes to complex changes in highly dynamic networks, requiring some iteration in staging that the hybrid approach affords. Based on our results, we make recommendations for balancing event-based and time-based parameters for our hybrid approach., Comment: IEEE VIS InfoVis 2020

Environmental sensors provide crucial data for understanding our surroundings. For example, air quality maps based on sensor readings help users make decisions to mitigate the effects of pollution on their health. Standard maps show readings from individual sensors or colored contours indicating estimated pollution levels. However, showing a single estimate may conceal uncertainty and lead to underestimation of risk, while showing sensor data yields varied interpretations. We present several visualizations of uncertainty in air quality maps, including a frequency-framing '`dotmap'' and small multiples, and we compare them with standard contour and sensor-based maps. In a user study, we find that including uncertainty in maps has a significant effect on how much users would choose to reduce physical activity, and that people make more cautious decisions when using uncertainty-aware maps. Additionally, we analyze think-aloud transcriptions from the experiment to understand more about how the representation of uncertainty influences people's decision-making. Our results suggest ways to design maps of sensor data that can encourage certain types of reasoning, yield more consistent responses, and convey risk better than standard maps.

Large, complex networks are commonly found in many application domains, such as sociology, biology, and software engineering. Analyzing such networks can be a non-trivial task, as it often takes many interactions to derive a finding. It is thus beneficial to capture and summarize the important steps in an analysis. This provenance would then effectively support recalling, reusing, reproducing, and sharing the analysis process and results. However, the provenance of analyzing a large, complex network would often be a long interaction record. To automatically compose a concise visual summarization of network analysis provenance, we introduce a ranking model together with a reduction algorithm. The model identifies and orders important interactions used in the network analysis. Based on this model, our algorithm is able to minimize the provenance, while still preserving all the essential steps for recalling and sharing the analysis process and results. We create a prototype system demonstrating the effectiveness of our model and algorithm with two usage scenarios. Keywords: Interactive visualization, Network data, Provenance, Visual analytics

The overall efficiency of an extreme-scale supercomputer largely relies on the performance of its network interconnects. Several of the state of the art supercomputers use networks based on the increasingly popular Dragonfly topology. It is crucial to study the behavior and performance of different parallel applications running on Dragonfly networks in order to make optimal system configurations and design choices, such as job scheduling and routing strategies. However, in order to study these temporal network behavior, we would need a tool to analyze and correlate numerous sets of multivariate time-series data collected from the Dragonfly’s multi-level hierarchies. This paper presents such a tool–a visual analytics system–that uses the Dragonfly network to investigate the temporal behavior and optimize the communication performance of a supercomputer. We coupled interactive visualization with time-series analysis methods to help reveal hidden patterns in the network behavior with respect to different parallel applications and system configurations. Our system also provides multiple coordinated views for connecting behaviors observed at different levels of the network hierarchies, which effectively helps visual analysis tasks. We demonstrate the effectiveness of the system with a set of case studies. Our system and findings can not only help improve the communication performance of supercomputing applications, but also the network performance of next-generation supercomputers. Keywords: Supercomputing, Parallel communication network, Dragonfly networks, Time-series data, Performance analysis, Visual analytics

In this paper, we propose a framework for automatically producing thumbnails from stereo image pairs. It has two components focusing respectively on stereo saliency detection and stereo thumbnail generation. The first component analyzes stereo saliency through various saliency stimuli, stereoscopic perception and the relevance between two stereo views. The second component uses stereo saliency to guide stereo thumbnail generation. We develop two types of thumbnail generation methods, both changing image size automatically. The first method is called content-persistent cropping (CPC), which aims at cropping stereo images for display devices with different aspect ratios while preserving as much content as possible. The second method is an object-aware cropping method (OAC) for generating the smallest possible thumbnail pair that retains the most important content only and facilitates quick visual exploration of a stereo image database. Quantitative and qualitative experimental evaluations demonstrate promising performance of our thumbnail generation methods in comparison to state-of-the-art algorithms.

The use of large-scale scientific simulations that can represent physical systems using both particle and volume data simultaneously is gaining popularity as each of these reference frames has an inherent set of advantages when studying different phenomena. Furthermore, being able to study the dynamic evolution of these time varying data types is an integral part of nearly all scientific endeavors. However, the techniques available to scientists generally limit them to studying each reference frame separately making it difficult to draw connections between the two. In this work we present a novel method of feature exploration that can be used to investigate spatio-temporal patterns in both data types simultaneously. More specifically, we focus on how spatio-temporal subsets can be identified from both reference frames, and develop new ways of visually presenting the embedded information to a user in an intuitive manner. We demonstrate the effectiveness of our method using case studies of real world scientific datasets and illustrate the new types of exploration and analyses that can be achieved through this technique.

Rapid advances in biology demand new tools for more active research dissemination and engaged teaching. This paper presents Synteny Explorer, an interactive visualization application designed to let college students explore genome evolution of mam- malian species. The tool visualizes synteny blocks: segments of homologous DNA shared between various extant species that can be traced back or reconstructed in extinct, ancestral species. We take a karyogram-based approach to create an interactive synteny visualization, leading to a more appealing and engaging design for undergraduate-level genome evolution education. For validation, we conduct three user studies: two focused studies on color and animation design choices and a larger study that performs overall system usability testing while comparing our karyogram-based designs with two more common genome mapping representations in an educational context. While existing views communicate the same information, study participants found the interactive, karyogram- based views much easier and likable to use. We additionally discuss feedback from biology and genomics faculty, who judge Synteny Explorer’s fitness for use in classrooms.

We present P5, a web-based visualization toolkit that combines declarative visualization grammar and GPU computing for progressive data analysis and visualization. To interactively analyze and explore big data, progressive analytics and visualization methods have recently emerged. Progressive visualizations of incrementally refining results have the advantages of allowing users to steer the analysis process and make early decisions. P5 leverages declarative grammar for specifying visualization designs and exploits GPU computing to accelerate progressive data processing and rendering. The declarative specifications can be modified during progressive processing to create different visualizations for analyzing the intermediate results. To enable user interactions for progressive data analysis, P5 utilizes the GPU to automatically aggregate and index data based on declarative interaction specifications to facilitate effective interactive visualization. We demonstrate the effectiveness and usefulness of P5 through a variety of example applications and several performance benchmark tests.

This study describes a detailed analysis of museum visitors' decoding process as they used a visualization designed to support exploration of a large, complex dataset. Quantitative and qualitative analyses revealed that it took, on average, 43 seconds for visitors to decode enough of the visualization to see patterns and relationships in the underlying data represented, and 54 seconds to arrive at their first correct data interpretation. Furthermore, visitors decoded throughout and not only upon initial use of the visualization. The study analyzed think-aloud data to identify issues visitors had mapping the visual representations to their intended referents, examine why they occurred, and consider if and how these decoding issues were resolved. The paper also describes how multiple visual encodings both helped and hindered decoding and concludes with implications on the design and adaptation of visualizations for informal science learning venues., IEEE VIS (InfoVis/VAST/SciVis) 2019 ACM 2012 CCS - Human-centered computing, Visualization, Empirical studies in visualization

There is growing interest in using data science techniques to characterize and predict natural disasters and extreme weather events. Such techniques merge noisy data gathered in the real world, from sources such as satellite detections, with algorithms that strongly depend on the noise, resolution, and uncertainty in these data. In this study, we present a visualization approach for interpolating multiresolution, uncertain satellite detections of wildfires into intuitive visual representations. We use extrinsic, intrinsic, coincident, and adjacent uncertainty representations as appropriate for understanding the information at each stage. To demonstrate our approach, we use our framework to tune two different algorithms for characterizing satellite detections of wildfires.

Dimensionality reduction (DR) is frequently used for analyzing and visualizing high-dimensional data as it provides a good first glance of the data. However, to interpret the DR result for gaining useful insights from the data, it would take additional analysis effort such as identifying clusters and understanding their characteristics. While there are many automatic methods (e.g., density-based clustering methods) to identify clusters, effective methods for understanding a cluster's characteristics are still lacking. A cluster can be mostly characterized by its distribution of feature values. Reviewing the original feature values is not a straightforward task when the number of features is large. To address this challenge, we present a visual analytics method that effectively highlights the essential features of a cluster in a DR result. To extract the essential features, we introduce an enhanced usage of contrastive principal component analysis (cPCA). Our method, called ccPCA (contrasting clusters in PCA), can calculate each feature's relative contribution to the contrast between one cluster and other clusters. With ccPCA, we have created an interactive system including a scalable visualization of clusters' feature contributions. We demonstrate the effectiveness of our method and system with case studies using several publicly available datasets., This is the author's version of the article that has been published in IEEE Transactions on Visualization and Computer Graphics. The final version of this record is available at: 10.1109/TVCG.2019.2934251

Different layouts can characterize different aspects of the same graph. Finding a "good" layout of a graph is thus an important task for graph visualization. In practice, users often visualize a graph in multiple layouts by using different methods and varying parameter settings until they find a layout that best suits the purpose of the visualization. However, this trial-and-error process is often haphazard and time-consuming. To provide users with an intuitive way to navigate the layout design space, we present a technique to systematically visualize a graph in diverse layouts using deep generative models. We design an encoder-decoder architecture to learn a model from a collection of example layouts, where the encoder represents training examples in a latent space and the decoder produces layouts from the latent space. In particular, we train the model to construct a two-dimensional latent space for users to easily explore and generate various layouts. We demonstrate our approach through quantitative and qualitative evaluations of the generated layouts. The results of our evaluations show that our model is capable of learning and generalizing abstract concepts of graph layouts, not just memorizing the training examples. In summary, this paper presents a fundamentally new approach to graph visualization where a machine learning model learns to visualize a graph from examples without manually-defined heuristics., Comment: To appear in IEEE Transactions on Visualization and Computer Graphics. In Proc. IEEE VIS 2019 (InfoVis)

Cloud computing is an essential technology to Big Data analytics and services. A cloud computing system is often comprised of a large number of parallel computing and storage devices. Monitoring the usage and performance of such a system is important for efficient operations, maintenance, and security. Tracing every application on a large cloud system is untenable due to scale and privacy issues. But profile data can be collected relatively efficiently by regularly sampling the state of the system, including properties such as CPU load, memory usage, network usage, and others, creating a set of multivariate time series for each system. Adequate tools for studying such large-scale, multidimensional data are lacking. In this paper, we present a visual based analysis approach to understanding and analyzing the performance and behavior of cloud computing systems. Our design is based on similarity measures and a layout method to portray the behavior of each compute node over time. When visualizing a large number of behavioral lines together, distinct patterns often appear suggesting particular types of performance bottleneck. The resulting system provides multiple linked views, which allow the user to interactively explore the data by examining the data or a selected subset at different levels of detail. Our case studies, which use datasets collected from two different cloud systems, show that this visual based approach is effective in identifying trends and anomalies of the systems.

This paper presents a declarative grammar for conveniently and effectively specifying advanced volume visualizations. Existing methods for creating volume visualizations either lack the flexibility to specify sophisticated visualizations or are difficult to use for those unfamiliar with volume rendering implementation and parameterization. Our design provides the ability to quickly create expressive visualizations without knowledge of the volume rendering implementation. It attempts to capture aspects of those difficult but powerful methods while remaining flexible and easy to use. As a proof of concept, our current implementation of the grammar allows users to combine multiple data variables in various ways and define transfer functions for diverse input data. The grammar also has the ability to describe advanced shading effects and create animations. We demonstrate the power and flexibility of our approach using multiple practical volume visualizations.

We present an algorithm for parallel volume rendering that is a hybrid between classical object order and image order techniques. The algorithm operates on unstructured grids (and structured ones), and thus can deal with block boundaries interleaving in complex ways. It also deals effectively with cases that are prone to load imbalance, i.e., cases where cell sizes differ dramatically, either because of the nature of the input data, or because of the effects of the camera transformation. The algorithm divides work over resources such that each phase of its processing is bounded in the amount of computation it can perform. We demonstrate its efficacy through a series of studies, varying over camera position, data set size, transfer function, image size, and processor count. At its biggest, our experiments scaled up to 8,192 processors and operated on data sets with more than one billion cells. In total, we find that our hybrid algorithm performs well in all cases. This is because our algorithm naturally adapts its computation based on workload, and can operate like either an object order technique or an image order technique in scenarios where those techniques are efficient.

Rendering techniques that increase realism in volume visualization help enhance perception of the 3D features in the volume data. While techniques focusing on high-quality global illumination have been extensively studied, few works handle the interaction of light with materials in the volume. Existing techniques for light-material interaction are limited in their ability to handle high-frequency real-world material data, and the current treatment of volume data poorly supports the correct integration of surface materials. In this paper, we introduce an alternative definition for the transfer function which supports surface-like behavior at the boundaries between volume components and volume-like behavior within. We show that this definition enables multi-material rendering with high-quality, real-world material data. We also show that this approach offers an efficient alternative to pre-integrated rendering through isosurface techniques. We introduce arbitrary spatially-varying materials to achieve better multi-material support for scanned volume data. Finally, we show that it is possible to map an arbitrary set of parameters directly to a material representation for the more intuitive creation of novel materials.

This article presents LightPainter, an interactive tool that promotes creative long-exposure photography through an intuitive drawing metaphor and flexible spatiotemporal mapping from videos to composite images. We discuss the power of software-defined exposure and the tools capability to facilitate creating sophisticated long-exposure effects in challenging scenarios.

In team-based workplaces, reviewing and reflecting on the content from a previously held meeting can lead to better planning and preparation. However, ineffective meeting summaries can impair this process, especially when participants have difficulty remembering what was said and what its context was. To assist with this process, we introduce MeetingVis, a visual narrative-based approach to meeting summarization. MeetingVis is composed of two primary components: (1) a data pipeline that processes the spoken audio from a group discussion, and (2) a visual-based interface that efficiently displays the summarized content. To design MeetingVis, we create a taxonomy of relevant meeting data points, identifying salient elements to promote recall and reflection. These are mapped to an augmented storyline visualization, which combines the display of participant activities, topic evolutions, and task assignments. For evaluation, we conduct a qualitative user study with five groups. Feedback from the study indicates that MeetingVis effectively triggers the recall of subtle details from prior meetings: all study participants were able to remember new details, points, and tasks compared to an unaided, memory-only baseline. This visual-based approaches can also potentially enhance the productivity of both individuals and the whole team.

In an effort to determine what elements need to be considered when designing personal visualizations, this research study explores how users react to different personal visualization designs. The authors present three distinct personal visualization designs (Timeline, Spark, and Bouquet) for visualizing Facebook user data. In a scenario-based user study, they interview participants to evaluation each design's utility, exploring the visualization of the users' own data, comparing two personal visualizations, and analyzing a series of personal visualizations. The analysis of the recorded conversations suggests that the illustrative design was the most well-balanced with respect to relaying information, motivating data exploration, and providing personal insights to the users. The authors believe this study will help guide future developers regarding the design of personal visualizations.

This paper presents a novel framework for applying storyline visualizations to streaming data. The framework includes three components: a new data management scheme for processing and storing the incoming data, a layout construction algorithm specifically designed for incrementally generating storylines from streaming data, and a layout refinement algorithm for improving the legibility of the visualization. By dividing the layout computation to two separate components, one for constructing and another for refining, our framework effectively provides the users with the ability to follow and reason dynamic data. The evaluation studies of our storyline visualization framework demonstrate its efficacy to present streaming data as well as its superior performance over existing methods in terms of both computational efficiency and visual clarity.

Sharing data for public usage requires sanitization to prevent sensitive information from leaking. Previous studies have presented methods for creating privacy preserving visualizations. However, few of them provide sufficient feedback to users on how much utility is reduced (or preserved) during such a process. To address this, we design a visual interface along with a data manipulation pipeline that allows users to gauge utility loss while interactively and iteratively handling privacy issues in their data. Widely known and discussed types of privacy models, i.e., syntactic anonymity and differential privacy, are integrated and compared under different use case scenarios. Case study results on a variety of examples demonstrate the effectiveness of our approach.

One of the most critical challenges for high-performance computing (HPC) scientific visualization is execution on massively threaded processors. Of the many fundamental changes we are seeing in HPC systems, one of the most profound is a reliance on new processor types optimized for execution bandwidth over latency hiding. Our current production scientific visualization software is not designed for these new types of architectures. To address this issue, the VTK-m framework serves as a container for algorithms, provides flexible data representation, and simplifies the design of visualization algorithms on new and future computer architecture.

The Eulerian and Lagrangian reference frames each provide a unique perspective when studying and visualizing results from scientific systems. As a result, many large-scale simulations produce data in both formats, and analysis tasks that simultaneously utilize information from both representations are becoming increasingly popular. However, due to their fundamentally different nature, drawing correlations between these data formats is a computationally difficult task, especially in a large-scale setting. In this work, we present a new data representation which combines both reference frames into a joint Eulerian-Lagrangian format. By reorganizing Lagrangian information according to the Eulerian simulation grid into a “unit cell” based approach, we can provide an efficient out-of-core means of sampling, querying, and operating with both representations simultaneously. We also extend this design to generate multi-resolution subsets of the full data to suit the viewer’s needs and provide a fast flow-aware trajectory construction scheme. We demonstrate the effectiveness of our method using three large-scale real world scientific datasets and provide insight into the types of performance gains that can be achieved.

Human’s daily movements exhibit high regularity in a space–time context that typically forms circadian rhythms. Understanding the rhythms for human daily movements is of high interest to a variety of parties from urban planners, transportation analysts, to business strategists. In this paper, we present an interactive visual analytics design for understanding and utilizing data collected from tracking human’s movements. The resulting system identifies and visually presents frequent human movement rhythms to support interactive exploration and analysis of the data over space and time. Case studies using real-world human movement data, including massive urban public transportation data in Singapore and the MIT reality mining dataset, and interviews with transportation researches were conducted to demonstrate the effectiveness and usefulness of our system., Visual Informatics, 1 (2)

This paper presents a new model resizing approach intended for preservation of important geometric content and geometric symmetries of the model to be resized. We first extract high-level symmetric regions and other low-level salient regions from the input model. Then, we map the extracted low-level and high-level geometry information to a protective tetrahedral mesh around the model, and we define a symmetry-preserving and content-aware resizing function on the tetrahedral mesh using 3D mean value coordinates space deformation. By interpolating within the resized tetrahedral mesh, we obtain the final resizing results for the embedded model. Interactively defined user constraints are also incorporated into our framework to produce more desirable results. Our results show that the resized models preserve the geometric features of important regions in addition to the symmetric aspects of the original model, and eliminate the undesirable distortion in other less important regions.

With the evolution of graphics hardware, high quality global illumination becomes available for real-time volume rendering. Compared to local illumination, global illumination can produce realistic shading effects which are closer to real world scenes, and has proven useful for enhancing volume data visualization to enable better depth and shape perception. However, setting up optimal lighting could be a nontrivial task for average users. There were lighting design works for volume visualization but they did not consider global light transportation. In this paper, we present a lighting design method for volume visualization employing global illumination. The resulting system takes into account view and transfer-function dependent content of the volume data to automatically generate an optimized three-point lighting environment. Our method fully exploits the back light which is not used by previous volume visualization systems. By also including global shadow and multiple scattering, our lighting system can effectively enhance the depth and shape perception of volumetric features of interest. In addition, we propose an automatic tone mapping operator which recovers visual details from overexposed areas while maintaining sufficient contrast in the dark areas. We show that our method is effective for visualizing volume datasets with complex structures. The structural information is more clearly and correctly presented under the automatically generated light sources.