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

2004


H.-W. Shen, G.-S. Li, U. Bordoloi. “Interactive Visualization of Three-Dimensional Vector Fields with Flexible Appearance Control,” In IEEE Transactions on Visualization and Computer Graphics, Vol. 10, No. 4, pp. 434--445. 2004.



J. Simpson, S.J. Balling. “ANNOT3D and Packaging of 3D Visualizations for Educational Purposes,” In Proceedings of The 12th Annual Medicine Meets Virtual Reality Conference, Newport Beach, CA, pp. (in press). January, 2004.



K.J. Stabile, J. Pfaeffle, J.A. Weiss, K. Fisher, M.M. Tomaino. “Bi-directional Mechanical Properties of the Human Forearm Interosseous Ligament,” In J. Orthoped. Res., Vol. 22, No. 3, pp. 607--612. 2004.



F. Stenger, T. Cook, R.M. Kirby. “Sinc Solution of Biharmonic Problems,” In Canadian Applied Mathematics Quarterly, Vol. 12, No. 3, pp. 391--413. 2004.



T. Tasdizen, D.M. Weinstein, J.N. Lee. “Automatic Tissue Classification for the Human Head from Multispectral MRI,” SCI Institute Technical Report, No. UUSCI-2004-001, University of Utah, March, 2004.



T. Tasdizen, R.T. Whitaker. “Higher-order nonlinear priors for surface reconstruction,” In IEEE Trans. Pattern Anal. & Mach. Intel., Vol. 26, No. 7, pp. 878--891. July, 2004.



T. Tasdizen, R.T. Whitaker. “An Efficient, Geometric Multigrid Solver for the Anisotropic Diffusion Equation in Two and Three Dimensions,” SCI Institute Technical Report, No. UUSCI-2004-002, University of Utah, June, 2004.



X. Tricoche, C. Garth, G. Kindlmann, E. Deines, G. Scheuermann, Markus Ruetten, Charles D. Hansen. “Visualization of Intricate Flow Structures for Vortex Breakdown Analysis,” In Proceeding of IEEE Visualization 2004, pp. 187--194. 2004.



X. Tricoche, C. Garth, T. Bobach, G. Scheuermann, M. Ruetten. “Accurate and Efficient Visualization of Flow Structures in a Delta Wing Simulation.,” In 34th AIAA Fluid Dynamics Conference and Exhibit, Portland, OR., American Institute of Aeronautics and Astronautics AIAA, June, 2004.



D. Uesu, L. Bavoil, S. Fleishman, C.T. Silva. “Simplification of Unstructured Tetrahedral Meshes by Point-Sampling,” SCI Institute Technical Report, No. UUSCI-2004-005, University of Utah, 2004.



R. Van Uitert, C.R. Johnson, L. Zhukov. “Influence of Head Tissue Conductivity in Forward and Inverse Magnetoencephalographic Simulations Using Realistic Head Models,” In IEEE Trans Biomed. Eng., Vol. 51, No. 12, pp. 2129--2137. 2004.



M.J. van Kreveld, R. van Oostrum, C.L. Bajaj, V. Pascucci, D.R. Schikore. “Efficient contour tree and minimum seed set construction,” In Surface Topological Data Structures: An Introduction for Geographical Information Science, Note: UCRL-BOOK-200018, Edited by Sanjay Rana and Jo Wood, John Wiley & Sons, pp. 71--86. May, 2004.



A.I. Veress, N. Phatak, J.A. Weiss. “Deformable Image Registration with Hyperelastic Warping,” In Topics in Biomedical Engineering International Book Series, Edited by J.S. Suri and D.L Wilson and S. Laxminarayan, Springer, pp. 487--533. 2004.
DOI: 10.1007/0-306-48608-3_12



A.I. Veress, W.P. Segars, B.M.W. Tsui, J.A. Weiss, G.T. Gullberg. “Physiologically Realistic LV Models to Produce Normal and Pathological Image and Phantom Data,” In Proceedings of the IEEE Medical Imaging Conference, Rome, October, 2004.



X. Wan, D. Xiu, G.E. Karniadakis. “Stochastic Solutions for the Two-dimensional Advection-Diffusion Equation,” In SIAM Journal on Scientific Computing, Vol. 26, No. 2, pp. 578--590. 2004.
DOI: 10.1137/S106482750342684X

ABSTRACT

In this paper, we solve the two-dimensional advection-diffusion equation with random transport velocity. The generalized polynomial chaos expansion is employed to discretize the equation in random space while the spectral hp element method is used for spatial discretization. Numerical results which demonstrate the convergence of generalized polynomial chaos are presented. Specifically, it appears that the fast convergence rate in the variance is the same as that of the mean solution in the Jacobi-chaos unlike the Hermite-chaos. To this end, a new model to represent compact Gaussian distributions is also proposed.

Keywords: generalized polynomial chaos, advection-diffusion, stochastic modeling



C.H. Wolters, L. Grasedyck, A. Anwander, H. Hackbusch. “Efficient Computation of Lead Field Bases and Influence Matrix for the FEM-Based EEG and MEG Inverse Problem,” In Proceedings of The 14th International Conference on Biomagnetism, Boston, MA, pp. 104--107. August, 2004.



C.H. Wolters, L. Grasedyck, W. Hackbusch. “Efficient Computation of Lead Field Bases and Influence Matrix for the FEM-Based EEG and MEG Inverse Problem,” In Inverse Problems, Vol. 20, No. 4, pp. 1099--1116. 2004.



C.H. Wolters, A. Anwander, B. Maess, R.S. MacLeod, A.D. Friederici. “The Influence of Volume Conduction Effects on the EEG/MEG Reconstruction of the Sources of the Early Left Anterior Negativity,” In Proceedings of the IEEE Engineering in Medicine and Biology Society 26th Annual International Conference, San Francisco, CA, Vol. 5, pp. 3569--3572. September, 2004.



C.H. Wolters, A. Anwander, S. Reitzinger, G. Haase. “Algebraic Multigrid with Multiple Right-Hand-Side Treatment for an Efficient Computation of EEG and MEG Lead Field Bases,” In Proceedings of The 14th International Conference on Biomagnetism, Boston, MA, pp. 465--466. August, 2004.



C.H. Wolters, A. Anwander, S. Reitzinger, G. Haase. “Avoiding the Problem of FE Meshing: A Parallel Algebraic Multigrid with Multiple Right-Hand Side Treatment for an Efficient and Memory-Economical Computation of High Resolution EEG and MEG Lead Field Bases,” In Proceedings of the IEEE Engineering in Medicine and Biology Society 26th Annual International Conference, San Francisco, CA, Note: poster, September, 2004.