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Mathematics and visualization 2014年 37卷 221-245页

作者： Pfister, Hanspeter Kaynig, Verena Botha, Charl P. Bruckner, Stefan Dercksen, Vincent J. Hege, Hans-Christian Roerdink, Jos B.T.M. School of Engineering and Applied Sciences Harvard University 33 Oxford St CambridgeMA02138 United States Vxlabs Somerset West South Africa Institute of Computer Graphics and Algorithms Vienna University of Technology Favoritenstraße 9-11/E186 Wien1040 Austria Department of Visualization and Data Analysis Zuse Institute Berlin Takustraße 7 Berlin14195 Germany Johann Bernoulli Institute for Mathematics and Computer Science University of Groningen P.O. Box 407 AK Groningen9700 Netherlands

Connectomics is a branch of neuroscience that attempts to create a connectome, i.e., a completemap of the neuronal system and all connections between neuronal structures. This representation can be used to understand how functional brain states emerge from their underlying anatomical structures and how dysfunction and neuronal diseases arise. We review the current state-of-the-art of visualization and image processing techniques in the field of connectomics and describe a number of challenges. After a brief summary of the biological background and an overview of relevant imaging modalities, we review current techniques to extract connectivity information from image data at macro-, meso- and *** also discuss data integration and neural network modeling, as well as the visualization, analysis and comparison of brain networks. © 2014, Springer-Verlag London.

关键词： visualization

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Partitioning and mapping a fast level-set algorithm on the GPU

Partitioning and mapping a fast level-set algorithm on the G...

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IEEE International Workshop on Intelligent data Acquisition and Advanced Computing Systems: Technology and Applications

作者： Julián Lamas-Rodríguez Dora B. Heras Francisco Argüello Stefan Zachow Dagmar Kainmueller CITIUS University of Santiago de Compostela Spain Visualization and Data Analysis Zuse Institute Berlin (ZIB) Germany

Level-set methods are commonly used to segment regions of interest within images or volumes. These tasks usually involve a high number of operations. GPUs nowadays feature high computation and data throughput capabilities. In this work we present two GPU implementations of the level-set-based segmentation method called Fast Two Cycle. Our solutions partition the computational domain in tiles that can be processed in parallel. The original algorithm is adapted to the special features of the GPU, and performance is optimized by keeping a record of the tiles that require processing at any given time. We have tested our implementations with a set of 3D CT images of brain vessels and we show that we can obtain competitive results using commodity hardware.

关键词： Graphics processing units Tiles Instruction sets Kernel Image segmentation Proposals Three-dimensional displays

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Scalable load balancing for massively parallel distributed Monte Carlo particle transport

Scalable load balancing for massively parallel distributed M...

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International Conference on Mathematics and Computational Methods Applied to Nuclear Science and Engineering, M and C 2013

作者： O'Brien, Matthew J. Brantley, Patrick S. Joy, Kenneth I. Lawrence Livermore National Laboratory 7000 East Avenue Livermore CA 94550 United States Institute for Data Analysis and Visualization Computer Science Department University of California One Shields Avenue Davis CA 95616 United States

ISBN: (纸本)9781627486439

In order to run computer simulations efficiently on massively parallel computers with hundreds of thousands or millions of processors, care must be taken that the calculation is load balanced across the processors. Examining the workload of every processor leads to an unscalable algorithm, with run time at least as large as O(N), where N is the number of processors. We present a scalable load balancing algorithm, with run time 0(log(N)), that involves iterated processor-pair-wise balancing steps, ultimately leading to a globally balanced workload. We demonstrate scalability of the algorithm up to 2 million processors on the Sequoia supercomputer at Lawrence Livermore National Laboratory.

关键词： Scalability

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A Maya use case: Adaptable scientific workflows with ADIOS for general relativistic astrophysics 13

A Maya use case: Adaptable scientific workflows with ADIOS f...

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Conference on Extreme Science and Engineering Discovery Environment, XSEDE 2013

作者： Slawinska, Magdalena Bode, Tanja Logan, Jeremy Clark, Michael Zou, Hongbo Kinsey, Matthew Wolf, Matthew Laguna, Pablo Klasky, Scott Georgia Institute of Technology College of Computing Atlanta GA United States Georgia Institute of Technology School of Physics Atlanta GA United States Remote Data Analysis and Visualization Center University of Tennessee Oak Ridge TN United States Oak Ridge National Laboratory Scientific Data Group Oak Ridge TN United States

ISBN: (纸本)9781450321709

There are many challenges in analyzing and visualizing data from current cutting-edge general relativistic astrophysics simulations. Many of the associated tasks are time-consuming with large performance degradation due to the magnitude and complexity of the data. The Adaptable I/O System (ADIOS) is a componentization of the I/O layer that has demonstrated remarkable I/O performance improvements on applications running on leadership class machines while also offering new in-memory "staging" operations for transforming data in-situ. We have been incorporating ADIOS staging technologies into our Maya numerical relativity code based on Cactus infrastructure and Carpet mesh refinement. Incorporating ADIOS into the Maya code is the first step toward enabling a more adaptable Maya workflow. We provide descriptions how we intend to leverage FlexPath (an ADIOS transport method) to provide a richer user experience in real-time visualization and interactive steering. © 2013 by the Association for Computing Machinery, Inc.

关键词： visualization

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On-Line Reconstruction of CAD Geometry

On-Line Reconstruction of CAD Geometry

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International Conference on 3D Imaging, Modeling, Processing, visualization and Transmission (3DIMPVT)

作者： Klaus Denker Daniel Hagel Jakob Raible Georg Umlauf Bernd Hamann Computer Graphics Laboratory Department of Computer Science Konstanz University of Applied Sciences Konstanz Germany Institute for Data Analysis and Visualization Department of Computer Science University of California Davis CA USA

In reverse engineering and computer-aided design (CAD) applications point cloud data is usually manually scanned, reconstructed, and post-processed in separated steps. When point cloud data resulting from a scanning process do not satisfy certain necessary reconstruction requirements, one must perform scanning again to enable proper reconstruction. On-line reconstruction of 3d geometry allows one to generate and update a CAD reconstruction on-line during the scanning process with an hand-held laser scanner. Thus, regions where the scanned data is insufficient for the reconstruction are detected on the fly to allow an immediate correction and improvement of the scanned data. This enables the operator to focus on critical regions in the scanned data to improve the reconstruction quality. We present an on-line segmentation and on-line reconstruction of basic geometric primitives. The presented methods allow for a real-time processing of a point stream. They utilize data structures that can be updated at any time when additional data from the stream has to be processed. This data is used to complete and improve the segmentation and reconstruction during the scanning process.

关键词： Surface reconstruction Geometry Image reconstruction Shape Lasers Design automation Image segmentation

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Efficient SDS Simulations on Multi-GPU Nodes of XSEDE High-End Clusters

Efficient SDS Simulations on Multi-GPU Nodes of XSEDE High-E...

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IEEE International Conference on e-Science and Grid Computing

作者： Samuel Schlachter Stephen Herbein Michela Taufer Shuching Ou Sandeep Patel Jeremy S. Logan Computer and Information Sciences University of Delaware Newark DE Chemistry and Biochemistry University of Delaware Newark DE Remote Data Analysis and Visualization Center Oak Ridge National Lab Oak Ridge TN

Efficiently studying Sodium Dodecyl Sulfate (SDS) molecules' formations in the presence of different molar concentrations on high-end GPU clusters whose nodes share accelerators exposes us to several challenges, including the need to dynamically adapt the job lengths. Neither virtualization nor lightweight OS solutions can easily support generality, portability, and maintainability in concert. Our solution complements rather than rewrites existing workflow and resource managers with a companion module that complements functions of the workflow manager and a wrapper module that extends functions of the resource managers. Results on the Keene land cluster show how, by using our modules, accelerated SDS simulations more efficiently use the cluster's GPUs while leading to relevant scientific observations.

关键词： Graphics processing units Trajectory Virtualization Computational modeling Runtime Electronic mail Torque

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Neutron scattering study of spin dynamics in superconducting (Tl,Rb)2Fe4Se5

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Physical Review B 2013年第10期87卷 100501(R)-100501(R)页

作者： Songxue Chi Feng Ye Wei Bao Minghu Fang H. D. Wang C. H. Dong A. T. Savici G. E. Granroth M. B. Stone R. S. Fishman Quantum Condensed Matter Division Oak Ridge National Laboratory Oak Ridge Tennessee 37831 USA Department of Physics and Astronomy University of Kentucky Lexington Kentucky 40506 USA Department of Physics Renmin University of China Beijing 100872 China Department of Physics Zhejiang University Hangzhou 310027 China Neutron Data Analysis and Visualization Division Oak Ridge National Laboratory Oak Ridge Tennessee 37831 USA Materials Science and Technology Division Oak Ridge National Laboratory Oak Ridge Tennessee 37831 USA

We observed in superconducting (Tl,Rb)2Fe4Se5 spin-wave branches that span an energy range from 6.5 to 209 meV. Spin dynamics are successfully described by a Heisenberg localized spin model whose dominant in-plane interactions include only the nearest (J1 and J1′) and next nearest neighbor (J2 and J2′) exchange terms within and between the tetramer spin blocks, respectively. These experimentally determined exchange constants would crucially constrain the theoretical viewpoints on magnetism and superconductivity in the Fe-based materials.

关键词： NEUTRON scattering SUPERCONDUCTORS HEISENBERG model MAGNETIC materials MAGNETISM

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Virtual reality supported visualization and evaluation of noise levels in manufacturing environments

Virtual reality supported visualization and evaluation of no...

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International Research and Training Group 1131 Workshop on visualization of Large and Unstructured data Sets: Applications in Geospatial Planning, Modeling and Engineering, VLUDS 2011

作者： Yang, Xiang Hamann, Bernd Aurich, Jan C. University of Kaiserslautern Germany CS Department Institute for Data Analysis and Visualization University of California Davis United States

ISBN: (纸本)9783939897460

Virtual Reality (VR) provides users advanced visualization and interaction technology for designing, analyzing and exploring complex data. To address the issue of noise in manufacturing environments, we developed a VR-supported method allowing users to explore noise behavior. This method consists of an implementation of acoustic simulation and visualization for both desktop and Cave Automatic Virtual Environment (CAVE) based VR systems. It enables useroriented, interactive analysis of simulated data, where there capability to immerse oneself in the data is especially valuable. In a real-world factory, the acoustic measurements obtained essential input data for simulation settings and validation data for simulation results. Furthermore, some political and legal aspects are addressed to enhance the evaluation of results and the visualization. By using the implemented software tool, users are able to understand and investigate the noise issue in manufacturing straightforwardly.

关键词： visualization

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Spherical terrain rendering using the hierarchical HEALPix grid

Spherical terrain rendering using the hierarchical HEALPix g...

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International Research and Training Group 1131 Workshop on visualization of Large and Unstructured data Sets: Applications in Geospatial Planning, Modeling and Engineering, VLUDS 2011

作者： Westerteiger, Rolf Gerndt, Andreas Hamann, Bernd Braunschweig Germany CS Department Institute for Data Analysis and Visualization University of California Davis United States Computer Graphics and HCI Group University of Kaiserslautern Germany

ISBN: (纸本)9783939897460

We present an interactive spherical terrain rendering system employing a hierarchical subdivision of the HEALPix coordinate system using quadtrees. Compared to other parameterizations, the scheme avoids singularities and allows for efficient fusion of mixed-resolution digital elevation models and imagery. A Level-of-Detail heuristic is used to guarantee both high performance and visual fidelity. Unified treatment of DEM and imagery data is achieved by performing the HEALPix projection within a GPU shader. The system is applied to the exploration of Mars, using both MOLA (NASA) and HRSC (German Aerospace Center) data sets.

关键词： NASA

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Preface 2nd

Preface

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2nd International Workshop on visualization in Medicine and Life Sciences, VMLS 2009

作者： Linsen, Lars Hagen, Hans Hamann, Bernd Hege, Hans-Christian Jacobs University Bremen School of Engineering and Science Postfach 75 05 61 Bremen28725 Germany Universität Kaiserslautern FB Informatik Postfach 30 49 Kaiserslautern67653 Germany Institute for Data Analysis and Visualization Department of Computer Science University of California Davis One Shields Avenue DavisCA95616-8562 United States Visualization and Data Analysis Takustr. 7 Berlin14195 Germany

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