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Surface reconstruction using oriented charges

Surface reconstruction using oriented charges

引用

computer Graphics International

作者： J. Wang M.M. Oliveira H. Xie A.E. Kaufman Center of Visual Computing Computer Science Stony Brook University USA Instituto de Informática UFRGS Brazil

We introduce the notion of oriented charges to compute distance fields from unorganized point clouds. Unlike traditional implicit function methods that usually require normal information, our approach only uses information about the position of the samples. Our approach is adaptive, using an octree to reorganize the input points, thus avoiding difficulties often associated with the use of local distance fields. The resulting representation is simple, efficient and general in the sense that it handles complex models of arbitrary topology, is robust in the presence of noise and fills holes automatically.

关键词： Surface reconstruction Topology computer graphics Three-dimensional displays Noise robustness Surface contamination Solid modeling

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visual simulation of chemical gardens

Visual simulation of chemical gardens

引用

computer Graphics International

作者： X. Wei F. Qiu W. Li S. Yoakum-Stover A. Kaufman Computer Science Department Iona College USA Center for Visual Computing and Department of Computer Science Stony Brook University USA Siemens AG Corporate Research and Development USA

We present a visualization and modeling system for the creation of chemical gardens. A chemical garden is a collection of plant-like structures formed when placing a soluble metal salt in an aqueous solution of sodium silicate. An accurate simulation of the chemical reaction of the metal salt and the physical behavior of the surrounding sodium silicate solution flow are complicated and time-consuming. Instead, in our system we use and propose a simplified 3D cellular automata (CA) approach to model the growing process of a chemical garden and its interaction with the solution flow. The input of our system is the shape and types of various soluble metal salts. Our program supports the visualization of the growth and formation of the chemical garden. The interactive rendering result on a texture mapping hardware also helps the user in observing and creating a desirable chemical garden.

关键词： Chemicals Biomembranes Crystals computer graphics Corrosion Computational modeling computer science visualization Osmosis Educational institutions

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Data mining in situ Gene expression patterns at cellular resolution

Data mining in situ Gene expression patterns at cellular res...

引用

2005 IEEE Computational Systems Bioinformatics Conference, Workshops and Poster Abstracts

作者： Carson, James Ju, Tao Thaller, Christina Bello, M. Kakadiaris, I. Warren, Joe Eichele, Gregor Chiu, Wah National Center for Macromolecular Imaging Baylor College of Medicine One Baylor Plaza Houston TX 77030 Verna and Marrs McLean Dept. of Biochemistry and Molecular Biology Baylor College of Medicine One Baylor Plaza Houston TX 77030 Dept. of Computer Science Rice University Houston TX Visual Computing Lab. Dept. of Computer Science University of Houston Houston TX Max Planck Institute of Experimental Endocrinology Hannover Germany

ISBN: (纸本)0769524427

Non-radioactive in situ hybridization (ISH) is a powerful technique for revealing gene expression in individual cells, the level of detail necessary for investigating how genes control cell type identity, cell differentiation, and cell-cell signaling. Although the availability of robotic ISH enables the expeditious determination of expression patterns for thousands of genes in serially sectioned tissues, a large collection of ISH images is, per se, of limited benefit. However, via accurate detection of expression strength and spatial normalization of expression location across different specimens, ISH images become a minable resource of annotated gene expression capable of advancing functional genomics in a mode similar to DNA sequence databases. We have developed computational methods to automate robotic ISH image annotation and applied these to over 200 genes throughout the postnatal mouse brain. Gene expression strengths were quantified for each cell tissue section images, and these images were subjected to atlas-based segmentation using a series of subdivision mesh maps that comprise our atlas of the postnatal mouse brain. With this common geometric representation of gene expression, patterns are automatically annotated and spatial searches successfully find the genes expressed in a similar fashion to custom query patterns. Cluster analysis of spatially normalized expression patterns identifies potential relationships in gene networks. Annotated gene expression patterns and query interfaces are publicly accessible at ***. © 2005 IEEE.

关键词： Data mining

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Data Mining in situ gene expression patterns at cellular resolution

Data Mining in situ gene expression patterns at cellular res...

引用

IEEE Computational Systems Bioinformatics Conference, CSB Workshops and Poster Abstracts

作者： J. Carson T. Ju C. Thaller M. Bello I. Kakadiaris J. Warren G. Eichele W. Chiu National Center for Macromolecular Imaging Baylor University College of Medicine Houston TX USA Department of Computer Science Rice University Houston TX USA Verna and Marrs McLean Department of Biochemistry and Molecular Biology Baylor University College of Medicine Houston TX USA Visual Computing Lab Department of Computer Science University of Houston Houston TX USA Max-Planck-Institut of Experimental Endocrinology Hanover Germany

Non-radioactive in situ hybridization (ISH) is a powerful technique for revealing gene expression in individual cells, the level of detail necessary for investigating how genes control cell type identity, cell differentiation, and cell-cell signaling. Although the availability of robotic ISH enables the expeditious determination of expression patterns for thousands of genes in serially sectioned tissues, a large collection of ISH images is, per se, of limited benefit. However, via accurate detection of expression strength and spatial normalization of expression location across different specimens, ISH images become a minable resource of annotated gene expression capable of advancing functional genomics in a mode similar to DNA sequence databases. We have developed computational methods to automate robotic ISH image annotation and applied these to over 200 genes throughout the postnatal mouse brain. Gene expression strengths were quantified for each cell tissue section images, and these images were subjected to atlas-based segmentation using a series of subdivision mesh maps that comprise our atlas of the postnatal mouse brain. With this common geometric representation of gene expression, patterns are automatically annotated and spatial searches success fully find the genes expressed in a similar fashion to custom query patterns. Cluster analysis of spatially normalized expression patterns identifies potential relationships in gene networks. Annotated gene expression patterns and query interfaces are publicly accessible at wv/spl bsol/w. geneattas. org.

关键词： Data mining Gene expression Mice Signal resolution Robots Genomics Bioinformatics DNA Sequences Image databases

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GPU cluster for high performance computing 04

GPU cluster for high performance computing

引用

2004 ACM/IEEE Conference on Supercomputing, SC 2004

作者： Fan, Zhe Qiu, Feng Kaufman, Arie Yoakum-Stover, Suzanne Center for Visual Computing Department of Computer Science Stony Brook University Stony BrookNY11794-4400 United States

ISBN: (纸本)0769521533

Inspired by the attractive Flops/dollar ratio and the incredible growth in the speed of modern graphics processing units (GPUs), we propose to use a cluster of GPUs for high performance scientific computing. As an example application, we have developed a parallel flow simulation using the lattice Boltzmann model (LBM) on a GPU cluster and have simulated the dispersion of airborne contaminants in the Times Square area of New York City. Using 30 GPU nodes, our simulation can compute a 480x400x80 LBM in 0.31 second/step, a speed which is 4.6 times faster than that of our CPU cluster implementation. Besides the LBM, we also discuss other potential applications of the GPU cluster, such as cellular automata, PDE solvers, and FEM. © 2004 IEEE.

关键词： Computational fluid dynamics

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Ultra-fast 3D filtered backprojection on commodity graphics hardware

Ultra-fast 3D filtered backprojection on commodity graphics ...

引用

IEEE International Symposium on Biomedical Imaging

作者： Fang Xu K. Mueller Center for Visual Computing Computer Science Department Stony Brook University NY USA

ISBN: (纸本)0780383885

Recent efforts in cone-beam scanner technology have focused on developing interactive scanning capabilities, for example, to enable image-guided surgical interventions or real-time diagnosis with time-varying data. However, apart from a fast scanner these applications also require a fast reconstruction algorithm to match. The filtered backprojection algorithm devised by Feldkamp, Davis, and Kress is the most widely used algorithm for 3D reconstruction from cone-beam projections, and it is the algorithm with the lowest complexity. Yet, pure software implementations have difficulties to process the data at the speeds required for real-time scanning. One option is to utilize expensive and rare custom boards for this purpose. We describe an alternative solution, which is inexpensive, uses readily available PC graphics hardware boards, and provides the desired performance at the quality required.

关键词： Graphics Hardware Image reconstruction Surgery Reconstruction algorithms Costs Acceleration Workstations Arithmetic Application software

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Squeeze: Numerical-precision-optimized volume rendering

Squeeze: Numerical-precision-optimized volume rendering

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作者： Bitter, Ingmar Neophytou, Neophytos Mueller, Klaus Kaufman, Arie E. Clinical Image Processing Services Department of Radiology National Institutes of Health United States Computer Science Center for Visual Computing State University of New York Stony Brook United States

ISBN: (纸本)3905673150

This paper discusses how to squeeze volume rendering into as few bits per operation as possible while still retaining excellent image quality. For each of the typical volume rendering pipeline stages in texture map volume rendering, ray casting and splatting we provide a quantitative analysis of the theoretical and practical limits for the required bit precision for computation and storage. Applying this analysis to any volume rendering implementation can balance the internal precisions based on the desired final output precision and can result in significant speedups and reduced memory footprint. © The Eurographics Association 2004.

关键词： Volume rendering

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Feature preserving distance fields

Feature preserving distance fields

引用

IEEE Symposium on Volume visualization and Graphics

作者： Huamin Qu Nan Zhang Ran Shao A. Kaufman K. Mueller Center for Visual Computing and Department of Computer Science Stony Brook University Stony Brook NY USA

ISBN: (纸本)0780387813

We present two distance field representations which can preserve sharp features in original geometric models: the offset distance field (ODF) and the unified distance field (UDF). The ODF is sampled on a special curvilinear grid named an offset grid. The sample points of the ODF are not on a regular grid and they can float in the cells of a regular base grid. The ODF can naturally adapt to curvature variations in the original mesh and can preserve sharp features. We describe an energy minimization approach to convert geometric models to ODFs. The UDF integrates multiple distance field representations into one data structure. By adaptively using different representations for different parts of a shape, the UDF can provide high fidelity surface representation with compact storage and fast rendering speed.

关键词： Sampling methods Surface reconstruction Solid modeling computer science Data structures computer graphics Radio access networks Rendering (computer graphics) Chromium Computational geometry

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SHIC: a view-dependent rendering framework for isosurfaces

SHIC: a view-dependent rendering framework for isosurfaces

引用

IEEE Symposium on Volume visualization and Graphics

作者： Nan Zhang Huamin Qu Wei Hong A. Kaufman Center for Visual Computing (CVC) and Department of Computer Science Stony Brook University Stony Brook NY USA

ISBN: (纸本)0780387813

We present selective and hierarchical isopoint clustering (SHIC) as a framework for interactive isosurface visualization. SHIC is an octree-based vertex hierarchy where each surface component in a cell is represented by a vertex (isopoint) with encoded connectivity. We describe a novel connectivity encoding scheme, called connectivity encoding bitmap, and two topology-preserving isopoint clustering algorithms to build the vertex hierarchy. Our framework is able to cluster surface components with up to four intersection points on a cell edge. During rendering, an incremental isosurface extraction algorithm is used to construct the isosurface dynamically. Events associated with vertex tree modifications and active vertices changes are unified using timestamps. Our framework is efficient, space-saving, and suitable for rendering large isosurface objects with local modifications.

关键词： Isosurfaces Clustering algorithms Rendering (computer graphics) visualization Encoding computer science Tree graphs Chromium computer graphics Computational geometry

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Range image registration via probability field

Range image registration via probability field

引用

computer Graphics International

作者： H. Zhang O. Hall-Holt A. Kaufman Center for Visual Computing (CVC) Computer Science Department Stony Brook University Stony Brook NY USA Center for Visual Computing (CVC) Department of Applied Mathematics and Statistics Stony Brook University Stony Brook NY USA

This paper presents a powerful variant of the ICP (iterative closest point) algorithm for registering range images using a probability field. The probability field (p-field) represents the probability distribution of the surface position. By capitalizing on the properties of the range image, fast construction, compact representation, and efficient query of the p-field can be achieved. Different sensor models are supported by the p-field according to the properties of the range image. Range images can be precisely aligned by maximizing the probability of overlapping surfaces via the p-field

关键词： Image registration Iterative closest point algorithm Iterative algorithms Image reconstruction Iterative methods computer science Mathematics Statistical distributions Probability distribution Image sensors

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