DevLan/vispubs huggingface dataset:
An Interactive Framework for Visualization of Weather Forecast Ensembles
Authors: Bo Ma 0002, Alireza Entezari
Published at SciVis, 2018

Numerical Weather Prediction (NWP) ensembles are commonly used to assess the uncertainty and confidence in weather forecasts. Spaghetti plots are conventional tools for meteorologists to directly examine the uncertainty exhibited by ensembles, where they simultaneously visualize isocontours of all ensemble members. To avoid visual clutter in practical usages, one needs to select a small number of informative isovalues for visual analysis. Moreover, due to the complex topology and variation of ensemble isocontours, it is often a challenging task to interpret the spaghetti plot for even a single isovalue in large ensembles. In this paper, we propose an interactive framework for uncertainty visualization of weather forecast ensembles that significantly improves and expands the utility of spaghetti plots in ensemble analysis. Complementary to state-of-the-art methods, our approach provides a complete framework for visual exploration of ensemble isocontours, including isovalue selection, interactive isocontour variability exploration, and interactive sub-region selection and re-analysis. Our framework is built upon the high-density clustering paradigm, where the mode structure of the density function is represented as a hierarchy of nested subsets of the data. We generalize the high-density clustering for isocontours and propose a bandwidth selection method for estimating the density function of ensemble isocontours. We present novel visualizations based on high-density clustering results, called the mode plot and the simplified spaghetti plot. The proposed mode plot visually encodes the structure provided by the high-density clustering result and summarizes the distribution of ensemble isocontours. It also enables the selection of subsets of interesting isocontours, which are interactively highlighted in a linked spaghetti plot for providing spatial context. To provide an interpretable overview of the positional variability of isocontours, our system allows for selection of informative isovalues from the simplified spaghetti plot. Due to the spatial variability of ensemble isocontours, the system allows for interactive selection and focus on sub-regions for local uncertainty and clustering re-analysis. We examine a number of ensemble datasets to establish the utility of our approach and discuss its advantages over state-of-the-art visual analysis tools for ensemble data.
CoDDA: A Flexible Copula-based Distribution Driven Analysis Framework for Large-Scale Multivariate Data
Authors: Subhashis Hazarika, Soumya Dutta, Han-Wei Shen, Jen-Ping Chen
Published at SciVis, 2018

CoDDA (Copula-based Distribution Driven Analysis) is a flexible framework for large-scale multivariate datasets. A common strategy to deal with large-scale scientific simulation data is to partition the simulation domain and create statistical data summaries. Instead of storing the high-resolution raw data from the simulation, storing the compact statistical data summaries results in reduced storage overhead and alleviated I/O bottleneck. Such summaries, often represented in the form of statistical probability distributions, can serve various post-hoc analysis and visualization tasks. However, for multivariate simulation data using standard multivariate distributions for creating data summaries is not feasible. They are either storage inefficient or are computationally expensive to be estimated in simulation time (in situ) for large number of variables. In this work, using copula functions, we propose a flexible multivariate distribution-based data modeling and analysis framework that offers significant data reduction and can be used in an in situ environment. The framework also facilitates in storing the associated spatial information along with the multivariate distributions in an efficient representation. Using the proposed multivariate data summaries, we perform various multivariate post-hoc analyses like query-driven visualization and sampling-based visualization. We evaluate our proposed method on multiple real-world multivariate scientific datasets. To demonstrate the efficacy of our framework in an in situ environment, we apply it on a large-scale flow simulation.
CPU Isosurface Ray Tracing of Adaptive Mesh Refinement Data
Authors: Feng Wang 0013, Ingo Wald, Qi Wu 0015, Will Usher 0001, Christopher R. Johnson 0001
Published at SciVis, 2018

Adaptive mesh refinement (AMR) is a key technology for large-scale simulations that allows for adaptively changing the simulation mesh resolution, resulting in significant computational and storage savings. However, visualizing such AMR data poses a significant challenge due to the difficulties introduced by the hierarchical representation when reconstructing continuous field values. In this paper, we detail a comprehensive solution for interactive isosurface rendering of block-structured AMR data. We contribute a novel reconstruction strategy-the octant method-which is continuous, adaptive and simple to implement. Furthermore, we present a generally applicable hybrid implicit isosurface ray-tracing method, which provides better rendering quality and performance than the built-in sampling-based approach in OSPRay. Finally, we integrate our octant method and hybrid isosurface geometry into OSPRay as a module, providing the ability to create high-quality interactive visualizations combining volume and isosurface representations of BS-AMR data. We evaluate the rendering performance, memory consumption and quality of our method on two gigascale block-structured AMR datasets.
Culling for Extreme-Scale Segmentation Volumes: A Hybrid Deterministic and Probabilistic Approach
Authors: Johanna Beyer, Haneen Mohammed, Marco Agus, Ali K. Al-Awami, Hanspeter Pfister, Markus Hadwiger
Published at SciVis, 2018

With the rapid increase in raw volume data sizes, such as terabyte-sized microscopy volumes, the corresponding segmentation label volumes have become extremely large as well. We focus on integer label data, whose efficient representation in memory, as well as fast random data access, pose an even greater challenge than the raw image data. Often, it is crucial to be able to rapidly identify which segments are located where, whether for empty space skipping for fast rendering, or for spatial proximity queries. We refer to this process asculling. In order to enable efficient culling of millions of labeled segments, we present a novel hybrid approach that combines deterministic and probabilistic representations of label data in a data-adaptive hierarchical data structure that we call the label list tree. In each node, we adaptively encode label data using either a probabilistic constant-time access representation for fast conservative culling, or a deterministic logarithmic-time access representation for exact queries. We choose the best data structures for representing the labels of each spatial region while building the label list tree. At run time, we further employ a novelquery-adaptiveculling strategy. While filtering a query down the tree, we prune it successively, and in each node adaptively select the representation that is best suited for evaluating the pruned query, depending on its size. We show an analysis of the efficiency of our approach with several large data sets from connectomics, including a brain scan with more than 13 million labeled segments, and compare our method to conventional culling approaches. Our approach achieves significant reductions in storage size as well as faster query times.
Deadeye: A Novel Preattentive Visualization Technique Based on Dichoptic Presentation
Authors: Andrey Krekhov, Jens H. Krüger
Published at SciVis, 2018

Preattentive visual features such as hue or flickering can effectively draw attention to an object of interest - for instance, an important feature in a scientific visualization. These features appear to pop out and can be recognized by our visual system, independently from the number of distractors. Most cues do not take advantage of the fact that most humans have two eyes. In cases where binocular vision is applied, it is almost exclusively used to convey depth by exposing stereo pairs. We present Deadeye, a novel preattentive visualization technique based on presenting different stimuli to each eye. The target object is rendered for one eye only and is instantly detected by our visual system. In contrast to existing cues, Deadeye does not modify any visual properties of the target and, thus, is particularly suited for visualization applications. Our evaluation confirms that Deadeye is indeed perceived preattentively. We also explore a conjunction search based on our technique and show that, in contrast to 3D depth, the task cannot be processed in parallel.
Details-First, Show Context, Overview Last: Supporting Exploration of Viscous Fingers in Large-Scale Ensemble Simulations
Authors: Timothy Luciani, Andrew Thomas Burks, Cassiano Sugiyama, Jonathan Komperda, G. Elisabeta Marai
Published at SciVis, 2018

Visualization research often seeks designs that first establish an overview of the data, in accordance to the information seeking mantra: “Overview first, zoom and filter, then details on demand”. However, in computational fluid dynamics (CFD), as well as in other domains, there are many situations where such a spatial overview is not relevant or practical for users, for example when the experts already have a good mental overview of the data, or when an analysis of a large overall structure may not be related to the specific, information-driven tasks of users. Using scientific workflow theory and, as a vehicle, the problem of viscous finger evolution, we advocate an alternative model that allows domain experts to explore features of interest first, then explore the context around those features, and finally move to a potentially unfamiliar summarization overview. In a model instantiation, we show how a computational back-end can identify and track over time low-level, small features, then be used to filter the context of those features while controlling the complexity of the visualization, and finally to summarize and compare simulations. We demonstrate the effectiveness of this approach with an online web-based exploration of a total volume of data approaching half a billion seven-dimensional data points, and report supportive feedback provided by domain experts with respect to both the instantiation and the theoretical model.
DT-MRI Streamsurfaces Revisited
Authors: Michael Ankele, Thomas Schultz 0001
Published at SciVis, 2018

DT-MRI streamsurfaces, defined as surfaces that are everywhere tangential to the major and medium eigenvector fields, have been proposed as a tool for visualizing regions of predominantly planar behavior in diffusion tensor MRI. Even though it has long been known that their construction assumes that the involved eigenvector fields satisfy an integrability condition, it has never been tested systematically whether this condition is met in real-world data. We introduce a suitable and efficiently computable test to the visualization literature, demonstrate that it can be used to distinguish integrable from nonintegrable configurations in simulations, and apply it to whole-brain datasets of 15 healthy subjects. We conclude that streamsurface integrability is approximately satisfied in a substantial part of the brain, but not everywhere, including some regions of planarity. As a consequence, algorithms for streamsurface extraction should explicitly test local integrability. Finally, we propose a novel patch-based approach to streamsurface visualization that reduces visual artifacts, and is shown to more fully sample the extent of streamsurfaces.
Dynamic Volume Lines: Visual Comparison of 3D Volumes through Space-filling Curves
Authors: Johannes Weissenböck, Bernhard Fröhler, M. Eduard Gröller, Johann Kastner, Christoph Heinzl
Published at SciVis, 2018

The comparison of many members of an ensemble is difficult, tedious, and error-prone, which is aggravated by often just subtle differences. In this paper, we introduce Dynamic Volume Lines for the interactive visual analysis and comparison of sets of 3D volumes. Each volume is linearized along a Hilbert space-filling curve into a 1D Hilbert line plot, which depicts the intensities over the Hilbert indices. We present a nonlinear scaling of these 1D Hilbert line plots based on the intensity variations in the ensemble of 3D volumes, which enables a more effective use of the available screen space. The nonlinear scaling builds the basis for our interactive visualization techniques. An interactive histogram heatmap of the intensity frequencies serves as overview visualization. When zooming in, the frequencies are replaced by detailed 1D Hilbert line plots and optional functional boxplots. To focus on important regions of the volume ensemble, nonlinear scaling is incorporated into the plots. An interactive scaling widget depicts the local ensemble variations. Our brushing and linking interface reveals, for example, regions with a high ensemble variation by showing the affected voxels in a 3D spatial view. We show the applicability of our concepts using two case studies on ensembles of 3D volumes resulting from tomographic reconstruction. In the first case study, we evaluate an artificial specimen from simulated industrial 3D X-ray computed tomography (XCT). In the second case study, a real-world XCT foam specimen is investigated. Our results show that Dynamic Volume Lines can identify regions with high local intensity variations, allowing the user to draw conclusions, for example, about the choice of reconstruction parameters. Furthermore, it is possible to detect ring artifacts in reconstructions volumes.
Exploring Time-Varying Multivariate Volume Data Using Matrix of Isosurface Similarity Maps
Authors: Jun Tao 0002, Martin Imre, Chaoli Wang 0001, Nitesh V. Chawla, Hanqi Guo 0001, Gokhan Sever, Seung Hyun Kim
Published at SciVis, 2018

We present a novel visual representation and interface named the matrix of isosurface similarity maps (MISM) for effective exploration of large time-varying multivariate volumetric data sets. MISM synthesizes three types of similarity maps (i.e., self, temporal, and variable similarity maps) to capture the essential relationships among isosurfaces of different variables and time steps. Additionally, it serves as the main visual mapping and navigation tool for examining the vast number of isosurfaces and exploring the underlying time-varying multivariate data set. We present temporal clustering, variable grouping, and interactive filtering to reduce the huge exploration space of MISM. In conjunction with the isovalue and isosurface views, MISM allows users to identify important isosurfaces or isosurface pairs and compare them over space, time, and value range. More importantly, we introduce path recommendation that suggests, animates, and compares traversal paths for effectively exploring MISM under varied criteria and at different levels-of-detail. A silhouette-based method is applied to render multiple surfaces of interest in a visually succinct manner. We demonstrate the effectiveness of our approach with case studies of several time-varying multivariate data sets and an ensemble data set, and evaluate our work with two domain experts.
Firefly: Virtual Illumination Drones for Interactive Visualization
Authors: Sergej Stoppel, Magnus Paulson Erga, Stefan Bruckner
Published at SciVis, 2018

Light specification in three dimensional scenes is a complex problem and several approaches have been presented that aim to automate this process. However, there are many scenarios where a static light setup is insufficient, as the scene content and camera position may change. Simultaneous manual control over the camera and light position imposes a high cognitive load on the user. To address this challenge, we introduce a novel approach for automatic scene illumination with Fireflies. Fireflies are intelligent virtual light drones that illuminate the scene by traveling on a closed path. The Firefly path automatically adapts to changes in the scene based on an outcome-oriented energy function. To achieve interactive performance, we employ a parallel rendering pipeline for the light path evaluations. We provide a catalog of energy functions for various application scenarios and discuss the applicability of our method on several examples.
Gaia Sky: Navigating the Gaia Catalog
Authors: Antoni Sagristà, Stefan Jordan, Thomas Müller 0005, Filip Sadlo
Published at SciVis, 2018

In this paper, we present Gaia Sky, a free and open-source multiplatform 3D Universe system, developed since 2014 in the Data Processing and Analysis Consortium framework of ESA's Gaia mission. Gaia's data release 2 represents the largest catalog of the stars of our Galaxy, comprising 1.3 billion star positions, with parallaxes, proper motions, magnitudes, and colors. In this mission, Gaia Sky is the central tool for off-the-shelf visualization of these data, and for aiding production of outreach material. With its capabilities to effectively handle these data, to enable seamless navigation along the high dynamic range of distances, and at the same time to provide advanced visualization techniques including relativistic aberration and gravitational wave effects, currently no actively maintained cross-platform, modern, and open alternative exists.
Hexahedral Mesh Structure Visualization and Evaluation
Authors: Kaoji Xu, Guoning Chen
Published at SciVis, 2018

Understanding hexahedral (hex-) mesh structures is important for a number of hex-mesh generation and optimization tasks. However, due to various configurations of the singularities in a valid pure hex-mesh, the structure (or base complex) of the mesh can be arbitrarily complex. In this work, we present a first and effective method to help meshing practitioners understand the possible configurations in a valid 3D base complex for the characterization of their complexity. In particular, we propose a strategy to decompose the complex hex-mesh structure into multi-level sub-structures so that they can be studied separately, from which we identify a small set of the sub-structures that can most efficiently represent the whole mesh structure. Furthermore, from this set of sub-structures, we attempt to define the first metric for the quantification of the complexity of hex-mesh structure. To aid the exploration of the extracted multi-level structure information, we devise a visual exploration system coupled with a matrix view to help alleviate the common challenge of 3D data exploration (e.g., clutter and occlusion). We have applied our tool and metric to a large number of hex-meshes generated with different approaches to reveal different characteristics of these methods in terms of the mesh structures they can produce. We also use our metric to assess the existing structure simplification techniques in terms of their effectiveness.
Interactive 3D Visual Analysis of Atmospheric Fronts
Authors: Michael Kern, Tim Hewson, Andreas Schäfler, Rüdiger Westermann, Marc Rautenhaus
Published at SciVis, 2018

Atmospheric fronts play a central role in meteorology, as the boundaries between different air masses and as fundamental features of extra-tropical cyclones. They appear in numerous conceptual model depictions of extra-tropical weather systems. Conceptually, fronts are three-dimensional surfaces in space possessing an innate structural complexity, yet in meteorology, both manual and objective identification and depiction have historically focused on the structure in two dimensions. In this work, we -a team of visualization scientists and meteorologists-propose a novel visualization approach to analyze the three-dimensional structure of atmospheric fronts and related physical and dynamical processes. We build upon existing approaches to objectively identify fronts as lines in two dimensions and extend these to obtain frontal surfaces in three dimensions, using the magnitude of temperature change along the gradient of a moist potential temperature field as the primary identifying factor. We introduce the use of normal curves in the temperature gradient field to visualize a frontal zone (i.e., the transitional zone between the air masses) and the distribution of atmospheric variables in such zones. To enable for the first time a statistical analysis of frontal zones, we present a new approach to obtain the volume enclosed by a zone, by classifying grid boxes that intersect with normal curves emanating from a selected front. We introduce our method by means of an idealized numerical simulation and demonstrate its use with two real-world cases using numerical weather prediction data.
Interactive obstruction-free lensing for volumetric data visualization
Authors: Michael Traoré, Christophe Hurter, Alexandru C. Telea
Published at SciVis, 2018

Occlusion is an issue in volumetric visualization as it prevents direct visualization of the region of interest. While many techniques such as transfer functions, volume segmentation or view distortion have been developed to address this, there is still room for improvement to better support the understanding of objects' vicinity. However, most existing Focus+Context fail to solve partial occlusion in datasets where the target and the occluder are very similar density-wise. For these reasons, we investigate a new technique which maintains the general structure of the investigated volumetric dataset while addressing occlusion issues. With our technique, the user interactively defines an area of interest where an occluded region or object is partially visible. Then our lens starts pushing at its border occluding objects, thus revealing hidden volumetric data. Next, the lens is modified with an extended field of view (fish-eye deformation) to better see the vicinity of the selected region. Finally, the user can freely explore the surroundings of the area under investigation within the lens. To provide real-time exploration, we implemented our lens using a GPU accelerated ray-casting framework to handle ray deformations, local lighting, and local viewpoint manipulation. We illustrate our technique with five application scenarios in baggage inspection, 3D fluid flow visualization, chest radiology, air traffic planning, and DTI fiber exploration.
Interactive Visualization of 3D Histopathology in Native Resolution
Authors: Martin Falk, Anders Ynnerman, Darren Treanor, Claes Lundström
Published at SciVis, 2018

We present a visualization application that enables effective interactive visual analysis of large-scale 3D histopathology, that is, high-resolution 3D microscopy data of human tissue. Clinical work flows and research based on pathology have, until now, largely been dominated by 2D imaging. As we will show in the paper, studying volumetric histology data will open up novel and useful opportunities for both research and clinical practice. Our starting point is the current lack of appropriate visualization tools in histopathology, which has been a limiting factor in the uptake of digital pathology. Visualization of 3D histology data does pose difficult challenges in several aspects. The full-color datasets are dense and large in scale, on the order of 100,000 × 100,000 × 100 voxels. This entails serious demands on both rendering performance and user experience design. Despite this, our developed application supports interactive study of 3D histology datasets at native resolution. Our application is based on tailoring and tuning of existing methods, system integration work, as well as a careful study of domain specific demands emanating from a close participatory design process with domain experts as team members. Results from a user evaluation employing the tool demonstrate a strong agreement among the 14 participating pathologists that 3D histopathology will be a valuable and enabling tool for their work.