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


 K. Zhang, K. Damevski, V. Venkatachalapathy, S.G. Parker. “SCIRun2: A CCA Framework for High Performance Computing,” In Proceedings of The 9th International Workshop on High-Level Parallel Programming Models and Supportive Environments, April, 2004.

2003


 M. Alexa, J. Behr, D. Cohen-Or, S. Fleishman, C.T. Silva, D. Levin. “Computing and Rendering Point Set Surfaces,” In IEEE Transactions on Visualization and Computer Graphics, Vol. 9, No. 1, pp. 3--15. 2003.
ISSN: 1077-2626


O. Alter, P.O. Brown, D. Botstein. “Generalized Singular Value Decomposition for Comparative Analysis of Genome-Scale Expression Datasets of Two Different Organisms,” In Proceedings of the National Academy of Sciences, Vol. 100, No. 6, Proceedings of the National Academy of Sciences, pp. 3351--3356. March, 2003.
DOI: 10.1073/pnas.0530258100


A. Baptista, T. Leen, Y. Zhang, A. Chawla, D. Maier, Wu-chang Feng, Wu-chi Feng, J. Walpole, C.T. Silva, J. Freire. “Environmental Observation and Forecasting Systems: Vision, Challenges and Successes of a Prototype,” In Proceedings of the International Society for Environmental Information Sciences Annual Conference (ISEIS '2003) on Systems Science and Information Technology for Environmental Applications, Regina, Sask, Canada, July, 2003.


M. Benedikt, C.Y. Chan, W. Fan, J. Freire, R. Rastogi. “Capturing Both Types and Constraints in Data Integration,” In Proceedings of the 2003 ACM SIGMOD International Conference on Management of Data, pp. 277--288. 2003.
ISBN: 1-58113-634-X


M. Berzins, A.G. Wilson. “Spatial Interaction Models and Fisher Information Theory A New Calibration Model,” In Environment and Planning, Vol. 35, pp. 2161--2176. 2003.


M. Bertram, X. Tricoche, H. Hagen. “Adaptive Smooth Scattered Data Approximation for Largescale Terrain Visualization,” In Proceedings of the Joint Eurographics-IEEE TCVG Symposium on Visualization: Data Visualization 2003, pp. 177--184. 2003.


P. Bohannon, J. Freire, J. Haritsa, M. Ramanath, P. Roy, J. Simeon. “Bridging the XML-Relational Divide with LegoDB: A Demonstration,” In International Conference on Data Engineering, pp. 759. 2003.
ISSN: 1063-6382


R. Borgo, R. Scopigno, P. Cignoni, V. Pascucci. “A Progressive Subdivision Paradigm (PSP),” In Proceedings of the Conference on Vision, Modeling and Visualization 2003 (VMV-03), Note: UCRL-PROC-208557, Edited by T. Ertl and B. Girod and G. Greiner and H. Niemann and H.-P. Seidel and E. Steinbach and R. Westermann, Aka GmbH, Berlin, Germany pp. 441--450. Nov, 2003.


P.-T. Bremer, H. Edelsbrunner, B. Hamann, V. Pascucci. “A Multi-resolution Data Structure for Two-dimensional Morse Functions,” In Proceedings of IEEE Conference on Visualization (VIS-03), Note: UCRL-JC-154014, pp. 139--146. October, 2003.


J. Cates, R.T. Whitaker. “Interactive Medical Image Segmentation Using the Insight Toolkit,” In Proceedings of The Radiological Society of North America Annual Meeting 2003, November, 2003.


D. Cohen-Or, Y.L. Chrysanthou, C.T. Silva, F. Durand. “A Survey of Visibility for Walkthrough Applications,” In IEEE Transactions on Visualization and Computer Graphics, Vol. 9, No. 3, IEEE Computer Society, Los Alamitos, CA, USA pp. 412--431. 2003.
ISSN: 1077-2626


M. Cole, S.G. Parker. “Dynamic Compilation of C++ Template Code,” In Scientific Programming, Vol. 11, IOS Press, pp. 321--327. 2003.


K. Cole-McLaughlin, H. Edelsbrunner, J. Harer, V. Natarajan, V. Pascucci. “Loops in Reeb Graphs of 2-Manifolds,” In Proceedings of the 19th ACM Symposium on Computational Geometry, Note: UCRL-JC-151933, pp. 344--350. June, 2003.


K. Cole-McLaughlin, H. Edelsbrunner, J. Harer, V. Natarajan, V. Pascucci. “Loops in Reeb Graphs of 2-Manifolds,” In Proceedings of the 19th ACM Symposium on Computational Geometry, Note: UCRL-JC-151933, pp. 344--350. June, 2003.


A. Corlan, R.S. MacLeod, L.D. Ambroggi. “Low Variability of Autocorrelation Maps with Intrathoracic Heart Position,” In Int. J. Bioelectromag., Vol. 5, No. 1, pp. 139--140. 2003.


W. Correa, J. Klosowski, C.T. Silva. “Visibility-Based Prefetching for Interactive Out-Of-Core Rendering,” In Proceedings of the 2003 IEEE Symposium on Parallel and Large-Data Visualization and Graphics, pp. 2. 2003.
ISBN: 0-7695-2091-X


W. Correa, J. Klosowski, C.T. Silva. “Out-Of-Core Sort-First Parallel Rendering for Cluster-Based Tiled Displays,” In Parallel Computing, Vol. 29, No. 3, pp. 325--338. 2003.


K. Damevski, S.G. Parker. “Parallel Remote Method Invocation and M-by-N Data Redistribution,” In Proceedings of the 4th Los Alamos Computer Science Institute Symposium, pp. (published on CD). 2003.


D.E. DeMarle, S.G. Parker, M. Hartner, C. Gribble, C.D. Hansen. “Distributed Interactive Ray Tracing for Large Volume Visualization,” In IEEE Symposium on Parallel Visualization and Graphics, Seattle, Wa., pp. 87--94. October, 2003.