Designed especially for neurobiologists, FluoRender is an interactive tool for multi-channel fluorescence microscopy data visualization and analysis.
Deep brain stimulation
BrainStimulator is a set of networks that are used in SCIRun to perform simulations of brain stimulation such as transcranial direct current stimulation (tDCS) and magnetic transcranial stimulation (TMS).
Developing software tools for science has always been a central vision of the SCI Institute.

SCI Publications

2003


S.M. Pizer, P.T. Fletcher, Y. Fridman, D.S. Fritsch, A.G. Gash, J.M. Glotzer, S. Joshi, A. Thall, G. Tracton, P. Yushkevich, E.L. Chaney. “Deformable M-Reps for 3D Medical Image Segmentation,” In International Journal of Computer Vision - Special UNC-MIDAG issue, Vol. 55, No. 2, Edited by O Faugeras and K Ikeuchi and J Ponce, Kluwer Academic, pp. 85--106. November-December, 2003.



S.M. Pizer, P.T. Fletcher, A. Thall, M. Styner, G. Gerig, S. Joshi. “Object Models in Multiscale Intrinsic Coordinates via M-reps,” In Image and Vision Computing, Special Issue on Generative Model-based Vision, Vol. 21, No. 1, pp. 5--15. January, 2003.



O. Portniaguine, C. Bonifasi, E. DiBella, R.T. Whitaker. “Inverse Methods for Reduced K-Space Acquisition,” In International Society for Magnetic Resonance in Medicine (ISMRM), Note: abstract., 2003.



S. Premoze, T. Tasdizen, J. Bigler, A.E. Lefohn, R. T. Whitaker. “Particle-Based Simulation of Fluids,” In Eurographics, pp. 401--410. 2003.



S.D. Ramsey, M. Bertram, C.D. Hansen. “Simplification of Arbitrary Polyhedral Meshes,” In IASTED Computer Graphics and Imaging (CGIM 2003), Honolulu, pp. 117--222. 2003.



M. Ramanath, J. Freire, J. Haritsa, P. Roy. “Searching for Efficient XML-to-Relational Mappings,” In Lecture Notes in Computer Science, Lecture Notes in Computer Science (LNCS), Vol. 2824, pp. 19--36. 2003.
ISBN: 978-3-540-20055-0
DOI: 10.1007/978-3-540-39429-7_2

ABSTRACT

We consider the problem of cost-based strategies to derive efficient relational configurations for XML applications that subscribe to an XML Schema. In particular, we propose a flexible framework for XML schema transformations and show how it can be used to design algorithms to search the space of equivalent relational configurations. We study the impact of the schema transformations and query workload on the search strategies for finding efficient XML-to-relational mappings. In addition, we propose several optimizations to speed up the search process. Our experiments indicate that a judicious choice of transformations and search strategies can lead to relational configurations of substantially higher quality than those recommended by previous approaches.



K. Riley, D. Ebert, C.D. Hansen, J. Levit. “Visually Accurate Multi-Field Weather Visualization,” In IEEE Visualization 2003, Seattle, pp. 279--286. 2003.



A.A. Samsonov, E.G. Kholmovski, C.R. Johnson. “Image Reconstruction from Sensitivity Encoded MRI Data Using Extrapolated Iterations of Parallel Projections Onto Convex Sets,” In SPIE Medical Imaging, Vol. 5032, pp. 1829--1838. 2003.



A.A. Samsonov, E.G. Kholmovski, C.R. Johnson. “Determination of the Sampling Density Compensation Function Using a Point Spread Function Modeling Approach and Gridding Approximation,” In Proceedings of 11th Annual Meeting of the International Society for Magnetic Resonance in Medicine (ISMRM), Toronto, pp. 477. 2003.



A.A. Samsonov, E.G. Kholmovski, C.R. Johnson. “A Modified POCSENSE Technique for Accelerated Iterative Reconstruction from Sensitivity Encoded MRI Data,” In Proceedings of 11th Annual Meeting of the International Society for Magnetic Resonance in Medicine (ISMRM), Toronto, pp. 477. 2003.



A.R. Sanderson, C.R. Johnson. “Display of Vector Fields Using a Reaction-Diffusion Model,” SCI Institute Technical Report, No. UUSCI-2003-002, University of Utah, June, 2003.



J. Schpok, J. Simons, D.S. Ebert, C.D. Hansen. “A Real-Time Cloud Modeling, Rendering, and Animation System,” In ACM Symposium on Computer Animation, San Diego, pp. 160--166. 2003.



Y. Serinagaoglu, D.H. Brooks, R.S. MacLeod. “Prior Model Selection for Bayesian Inverse Electrocardiography,” In Proceedings of the NFSI Conference 2003, Chieti, Italy, 2003.



Y. Serinagaoglu, R.S. MacLeod, D.H. Brooks. “A Bayesian Approach to Inclusion and Performance Analysis of Using Extra Information in Bioelectric Inverse Problems,” In Proceedings of the IEEE International Conference on Image Processing, 2003.



Y. Serinagaoglu, D.H. Brooks, R.S. MacLeod. “Combining Numerical and Physiological Constraints in Inverse Electrocardiography,” In Int. J. Bioelectromag., Vol. 5, No. 1, pp. 215--217. 2003.



J.G. Stinstra, B. Hopenfeld, R.S. MacLeod. “A Model for the Passive Cardiac Conductivity,” In Int. J. Bioelectromag., Vol. 5, No. 1, pp. 185--186. 2003.



M. Styner, G. Gerig, S. Pizer, S. Joshi. “Automatic and Robust Computation of 3D Medial Models Incorporating Object Variability,” In International Journal of Computer Vision - Special UNC-MIDAG issue, Vol. 55, No. 2, Edited by O Faugeras and K Ikeuchi and J Ponce, Kluwer Academic, pp. 107--122. November-December, 2003.



T. Tasdizen, R.T. Whitaker, P. Burchard, S. Osher. “Geometric Surface Processing via Normal Maps,” In ACM Transactions on Graphics, 2003.



T. Tasdizen, R.T. Whitaker. “Cramer-Rao Bounds for Nonparametric Surface Reconstruction from Range Data,” In Proceedings of Fourth International Conference on 3-D Imaging and Modeling, pp. 70--77. October, 2003.



T. Tasdizen, R.T. Whitaker. “Anisotropic diffusion of surface normals for feature preserving surface reconstruction,” In Proceedings of Fourth International Conferenceon 3-D Imaging and Modeling, pp. 353--360. October, 2003.