517 research outputs found
Inviwo -- A Visualization System with Usage Abstraction Levels
The complexity of today's visualization applications demands specific
visualization systems tailored for the development of these applications.
Frequently, such systems utilize levels of abstraction to improve the
application development process, for instance by providing a data flow network
editor. Unfortunately, these abstractions result in several issues, which need
to be circumvented through an abstraction-centered system design. Often, a high
level of abstraction hides low level details, which makes it difficult to
directly access the underlying computing platform, which would be important to
achieve an optimal performance. Therefore, we propose a layer structure
developed for modern and sustainable visualization systems allowing developers
to interact with all contained abstraction levels. We refer to this interaction
capabilities as usage abstraction levels, since we target application
developers with various levels of experience. We formulate the requirements for
such a system, derive the desired architecture, and present how the concepts
have been exemplary realized within the Inviwo visualization system.
Furthermore, we address several specific challenges that arise during the
realization of such a layered architecture, such as communication between
different computing platforms, performance centered encapsulation, as well as
layer-independent development by supporting cross layer documentation and
debugging capabilities
Doctor of Philosophy
dissertationHigh-order finite element methods, using either the continuous or discontinuous Galerkin formulation, are becoming more popular in fields such as fluid mechanics, solid mechanics and computational electromagnetics. While the use of these methods is becoming increasingly common, there has not been a corresponding increase in the availability and use of visualization methods and software that are capable of displaying visualizations of these volumes both accurately and interactively. A fundamental problem with the majority of existing visualization techniques is that they do not understand nor respect the structure of a high-order field, leading to visualization error. Visualizations of high-order fields are generally created by first approximating the field with low-order primitives and then generating the visualization using traditional methods based on linear interpolation. The approximation step introduces error into the visualization pipeline, which requires the user to balance the competing goals of image quality, interactivity and resource consumption. In practice, visualizations performed this way are often either undersampled, leading to visualization error, or oversampled, leading to unnecessary computational effort and resource consumption. Without an understanding of the sources of error, the simulation scientist is unable to determine if artifacts in the image are due to visualization error, insufficient mesh resolution, or a failure in the underlying simulation. This uncertainty makes it difficult for the scientists to make judgments based on the visualization, as judgments made on the assumption that artifacts are a result of visualization error when they are actually a more fundamental problem can lead to poor decision-making. This dissertation presents new visualization algorithms that use the high-order data in its native state, using the knowledge of the structure and mathematical properties of these fields to create accurate images interactively, while avoiding the error introduced by representing the fields with low-order approximations. First, a new algorithm for cut-surfaces is presented, specifically the accurate depiction of colormaps and contour lines on arbitrarily complex cut-surfaces. Second, a mathematical analysis of the evaluation of the volume rendering integral through a high-order field is presented, as well as an algorithm that uses this analysis to create accurate volume renderings. Finally, a new software system, the Element Visualizer (ElVis), is presented, which combines the ideas and algorithms created in this dissertation in a single software package that can be used by simulation scientists to create accurate visualizations. This system was developed and tested with the assistance of the ProjectX simulation team. The utility of our algorithms and visualization system are then demonstrated with examples from several high-order fluid flow simulations
Interactive 3D visualization for theoretical Virtual Observatories
Virtual Observatories (VOs) are online hubs of scientific knowledge. They
encompass a collection of platforms dedicated to the storage and dissemination
of astronomical data, from simple data archives to e-research platforms
offering advanced tools for data exploration and analysis. Whilst the more
mature platforms within VOs primarily serve the observational community, there
are also services fulfilling a similar role for theoretical data. Scientific
visualization can be an effective tool for analysis and exploration of datasets
made accessible through web platforms for theoretical data, which often contain
spatial dimensions and properties inherently suitable for visualization via
e.g. mock imaging in 2d or volume rendering in 3d. We analyze the current state
of 3d visualization for big theoretical astronomical datasets through
scientific web portals and virtual observatory services. We discuss some of the
challenges for interactive 3d visualization and how it can augment the workflow
of users in a virtual observatory context. Finally we showcase a lightweight
client-server visualization tool for particle-based datasets allowing
quantitative visualization via data filtering, highlighting two example use
cases within the Theoretical Astrophysical Observatory.Comment: 10 Pages, 13 Figures, Accepted for Publication in Monthly Notices of
the Royal Astronomical Societ
scenery: Flexible Virtual Reality Visualization on the Java VM
Life science today involves computational analysis of a large amount and
variety of data, such as volumetric data acquired by state-of-the-art
microscopes, or mesh data from analysis of such data or simulations.
Visualization is often the first step in making sense of data, and a crucial
part of building and debugging analysis pipelines. It is therefore important
that visualizations can be quickly prototyped, as well as developed or embedded
into full applications. In order to better judge spatiotemporal relationships,
immersive hardware, such as Virtual or Augmented Reality (VR/AR) headsets and
associated controllers are becoming invaluable tools. In this work we introduce
scenery, a flexible VR/AR visualization framework for the Java VM that can
handle mesh and large volumetric data, containing multiple views, timepoints,
and color channels. scenery is free and open-source software, works on all
major platforms, and uses the Vulkan or OpenGL rendering APIs. We introduce
scenery's main features and example applications, such as its use in VR for
microscopy, in the biomedical image analysis software Fiji, or for visualizing
agent-based simulations.Comment: Added IEEE DOI, version published at VIS 201
NNVA: Neural Network Assisted Visual Analysis of Yeast Cell Polarization Simulation
Complex computational models are often designed to simulate real-world
physical phenomena in many scientific disciplines. However, these simulation
models tend to be computationally very expensive and involve a large number of
simulation input parameters which need to be analyzed and properly calibrated
before the models can be applied for real scientific studies. We propose a
visual analysis system to facilitate interactive exploratory analysis of
high-dimensional input parameter space for a complex yeast cell polarization
simulation. The proposed system can assist the computational biologists, who
designed the simulation model, to visually calibrate the input parameters by
modifying the parameter values and immediately visualizing the predicted
simulation outcome without having the need to run the original expensive
simulation for every instance. Our proposed visual analysis system is driven by
a trained neural network-based surrogate model as the backend analysis
framework. Surrogate models are widely used in the field of simulation sciences
to efficiently analyze computationally expensive simulation models. In this
work, we demonstrate the advantage of using neural networks as surrogate models
for visual analysis by incorporating some of the recent advances in the field
of uncertainty quantification, interpretability and explainability of neural
network-based models. We utilize the trained network to perform interactive
parameter sensitivity analysis of the original simulation at multiple
levels-of-detail as well as recommend optimal parameter configurations using
the activation maximization framework of neural networks. We also facilitate
detail analysis of the trained network to extract useful insights about the
simulation model, learned by the network, during the training process.Comment: Published at IEEE Transactions on Visualization and Computer Graphic
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