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

2007


A. Gyulassy, V. Natarajan, B. Hamann, M. Duchaineau, V. Pascucci, E. Bringa, A. Higginbotham. “Topologically Clean Distance Fields,” In IEEE Transactions on Visualization and Computer Graphics, Note: (presented at IEEE VIS 2007), 2007.



D. Laney, P.-T. Bremer, A. Mascarenhas, P. Miller, V. Pascucci. “Understanding the Structure of the Turbulent Mixing Layer in Hydrodynamic Instabilities,” In IEEE Transactions on Visualization and Computer Graphics, Vol. 13, No. 1, pp. 1053--1060. January, 2007.



V. Pascucci, G. Scorzelli, P.-T. Bremer, A. Mascarenhas. “Robust On-line Computation of Reeb Graphs: Simplicity and Speed,” In ACM Transactions on Graphics: ACM SIGGRAPH 2007 Papers, ACM Press, New York, NY, USA pp. 1057--1066. 2007.



H.T. Vo, S.P. Callahan, P. Lindstrom, V. Pascucci, C.T. Silva. “Streaming Simplification of Tetrahedral Meshes,” In IEEE Transactions on Visualization and Computer Graphics, Vol. 13, No. 1, pp. 145--155. Jan/Feb, 2007.



G.H. Weber, P.-T. Bremer, V. Pascucci. “Topological Landscapes: A Terrain Metaphor for Scientific Data,” In IEEE Transactions on Visualization and Computer Graphics, Note: (presented at IEEE VIS 2007), 2007.



G.H. Weber, S.E. Dillard, H. Carr, V. Pascucci, B. Hamann. “Topology-controlled volume rendering,” In IEEE Transactions on Visualization and Computer Graphics, Vol. 13, No. 2, pp. 330--341. January, 2007.


2006


W. Bethel, C.R. Johnson, C.D. Hansen, S.G. Parker, A.R. Sanderson, C.T. Silva, X. Tricoche, V. Pascucci, H. Childs, J. Cohen, M. Duchaineau, D. Laney, P. Lindstrom, S. Ahern, J. Meredith, G. Ostrouchov, K. Joy, B. Hamann. “VACET: Proposed SciDAC2 Visualization and Analytics Center for Enabling Technologies,” In J. Phys.: Conf. Ser., Vol. 46, pp. 561--569. 2006.



P.-T. Bremer, W. Cabot, A. Cook, D. Laney, A. Mascarenhas, P. Miller, V. Pascucci. “Understanding the Structure of the Turbulent Mixing Layer in Hydrodynamic Instabilities,” In Proceedings of SciDAC 2006 -- Scientific Discovery Through Advanced Computing, Denver, CO, USA, Vol. 46, Journal of Physics Conference Series, pp. 556--560. June, 2006.



S.P. Callahan, L. Bavoil, V. Pascucci, C.T. Silva. “Progressive Volume Rendering of Large Unstructured Grids,” SCI Institute Technical Report, No. UUSCI-2006-019, University of Utah, 2006.



S.P. Callahan, L. Bavoil, V. Pascucci, C.T. Silva. “Progressive Volume Rendering of Large Unstructured Grids,” In IEEE Transactions on Visualization and Computer Graphics, Vol. 12, No. 5, Note: Updated version of UUSCI-2006-019., pp. 1307--1314. 2006.
DOI: 10.1109/TVCG.2006.171



S.E. Dillard, V. Natarajan, G.H. Weber, V. Pascucci, B. Hamann. “Tessellation of Quadratic Elements,” In ISAAC, pp. 722--731. 2006.



S. Dong, P.-T. Bremer, M. Garland, V. Pascucci, J.C. Hart. “Spectral Surface Quadrangulation,” In ACM Transactions on graphics: ACM SIGGRAPH 2006 Papers, Boston, Massachusetts, ACM Press, New York, NY, USA pp. 1057--1066. 2006.
ISBN: 1-59593-364-6



H. Edelsbrunner, D. Morozov, V. Pascucci. “Persistence-based Simplification of Real-Valued Functions on 2-Manifolds,” In Proceedings of the 22nd International Annual Symposium on Computational Geometry, Note: To appear, pp. 212--220. 2006.



A. Gyulassy, V. Natarajan, V. Pascucci, P.-T. Bremer, B. Hamann. “A Topological Approach to Simplification of Three-Dimensional Scalar Functions,” In IEEE Transactions on Visualization and Computer Graphics, Vol. 12, No. 4, pp. 474--484. August, 2006.



P. Miller, P.-T. Bremer, W. Cabot, A. Cook, D. Laney, A. Mascarenhas, V. Pascucci. “Application of Morse Theory to Analysis of Rayleigh-Taylor Topology,” In 10th International Workshop on the Physics of Compressible Turbulent Mixing, 2006.



V. Natarajan, Y. Wang, P.-T. Bremer, V. Pascucci, B. Hamann. “Segmenting Molecular Surfaces,” In Computer Aided Geometric Design, Special Issue on Applications of Geometric Modeling in the Life Sciences, Vol. 23, No. 6, Note: (To appear), pp. 495--509. 2006.



V. Pascucci. “Topology Diagrams of Scalar Fields in Scientific Visualisation,” In Topological Data Structures for Surfaces, Note: UCRL-BOOK-200013, Edited by Sanjay Rana and Jo Wood, Wiley-Blackwell, pp. 121--129. May, 2006.
DOI: 10.1002/0470020288.ch8



T. Schultz, B. Burgeth, J. Weickert. “Flexible Segmentation and Smoothing of DT-MRI Fields Through a Customizable Structure Tensor,” In Advances in Visual Computing, Lecture Notes in Computer Science, Vol. 4291, Edited by G. Bebis and R. Boyle and B. Parvin and D. Koracin and P. Remagnino and A. V. Nefian and M. Gopi and V. Pascucci and J. Zara and J. Molineros and H. Theisel and T. Malzbender, Springer, pp. 455--464. 2006.



J. Strasser, V. Pascucci, K.-L. Ma. “Multi-layered Image Caching for Distributed Rendering of Large Multiresolution Datasets,” In Eurographics Symposium on Parallel Graphics and Visualization, Edited by Bruno Raffin and Alan Heirich and Luis Paulo Santos, Eurographics Association, Braga, Portugal pp. 171--177. 2006.
ISBN: 3-905673-40-1
ISSN: 1727-348X


2005


P.-T. Bremer, V. Pascucci, B. Hamann. “Maximizing Adaptivity in Hierarchical Topological Models,” In International Conference on Shape Modeling and Applications 2005, IEEE, 2005.
DOI: 10.1109/smi.2005.28