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


C.D. Hansen, T. Udeshi, S.G. Parker, P. Shirley. “Parallel Methods for Isosurface Visualization,” In Ninth SIAM Conference on Parallel Processing for Scientific Computing, Note: extended abstract, 1999.

R.E. Hogan, K.E. Mark, L. Wang, S.C. Joshi, M.I. Miller, R.D. Bucholz. “MR Imaging Deformation-Based Segmentation of the Hippocampus in Patients with Mesial Temporal Sclerosis and Temporal Lobe Epilepsy,” In Epilepsia, Vol. 40, No. 7, 1999.

C.R. Johnson, S.G. Parker. “The SCIRun Parallel Scientific Computing Problem Solving Environment,” In Ninth SIAM Conference on Parallel Processing for Scientific Computing, 1999.

C.R. Johnson, S.G. Parker, C.D. Hansen, G.L. Kindlmann, Y. Livnat. “Interactive Simulation and Visualization,” In IEEE Computer, Vol. 32, No. 12, pp. 59--65. Dec, 1999.

M. Joshi, J. Cui, K. Doolittle, S. Joshi, D.C. Van Essen, L. Wang, M. Miller. “Brain Segmentation and the Generation of Cortical Surfaces,” In Neuroimage, Vol. 9, No. 5, pp. 461--476. May, 1999.

G.-S. Karamanos, C. Evangelinos, R.C. Boes, R.M. Kirby, G.E. Karniadakis. “Direct Numerical Simulation of Turbulence with a PC/Linux Cluster: Fact or Fiction?,” In Proceedings of SuperComputing 1999, Portland, OR, November, 1999.

G.L. Kindlmann, D.M. Weinstein. “Hue-Balls and Lit-Tensors for Direct Volume Rendering of Diffusion Tensor Fields,” In Proceedings of the IEEE Visualization 99, pp. 183--189. 1999.

R.M. Kirby, T.C. Warburton, I. Lomtev, G.E. Karniadakis. “A Discontinuous Galerkin Spectral/hp Method on Hybrid Grids,” In Journal of Applied Numerical Mathematics, Vol. 33, pp. 393--405. 1999.

R.M. Kirby, H. Marmanis, D.H. Laidlaw. “Visualizing Multivalued Data from 2D Incompressible Flows Using Concepts from Painting,” In Proceedings of IEEE Visualization 1999, San Francisco, CA, pp. 333--340. October, 1999.

Y. Livnat. “NOISE, WISE and SAGE: Algorithms for Rapid Isosurface Extraction,” SCI Institute Technical Report, No. UUSCI-1999-001, University of Utah, December, 1999.

I. Lomtev, R.M. Kirby, G.E. Karniadakis. “A Discontinuous Galerkin ALE Method for Compressible Viscous Flows in Moving Domains,” In Journal of Computational Physics, Vol. 155, pp. 128--159. 1999.

P. McCormick, C.D. Hansen, E. Angel. “The Deferred Accumulation Buffer,” In Journal for Graphics Tools, Vol. 4, No. 3, pp. 35--46. 1999.

M. Miller, C.D. Hansen, C.R. Johnson. “The SCIRun Problem Solving Environment: Implementation within a Distributed Environment,” In Ninth SIAM Conference on Parallel Processing for Scientific Computing, Note: extended abstract, 1999.

M.I. Miller, S.C. Joshi, G.E. Christensen. “Large Deformation Fluid Diffeomorphisms For Landmark and Image Matching,” In Brain Warping, Edited by A. W. Toga and John Mazziotta, pp. 115--131. 1999.

J. Nash, P. Dew, M. Berzins. “Using SADTs to Support Irregular Computational Problems,” In International Symposium on Parallel Architectures, Algorithms, and Networks, IEEE Computer Society, Los Alamitos, CA, USA pp. 338--344. 1999.
ISSN: 1087-4089
DOI: 10.1109/ISPAN.1999.778961

J. Nash, M. Berzins, P. Selwood. “A Structured SADT Approach to the Support of a Parallel Adaptive 3D CFD Code,” In Euro-Par'99 Parallel Processing, Springer Nature, pp. 651--658. 1999.
DOI: 10.1007/3-540-48311-x_91

E.M. Nurgat, M. Berzins, L.E. Scales. “Solving EHL Problems Using Iterative Multigrid and Homotopy Methods,” In ASME Journal of Tribology, Vol. 121, pp. 28--34. January, 1999.

S.G. Parker, M. Parker, Y. Livnat, P.P. Sloan, C.D. Hansen, P. Shirley. “Interactive Ray Tracing for Volume Visualization,” In IEEE Transactions on Visualization and Computer Graphics, Vol. 5, No. 3, pp. 238--250. July-September, 1999.

S.G. Parker, P. Shirley, Y. Livnat, C.D. Hansen, P.-P. Sloan, M. Parker. “Interacting with Gigabyte Volume Datasets on the Origin 2000,” In The 41st Annual Cray User's Group Conference, 1999.

S.G. Parker, W. Martin, P.-P. Sloan, P. Shirley, B. Smits, C.D. Hansen. “Interactive Ray Tracing,” In Symposium on Interactive 3D Graphics: Interactive 3D, pp. 119--126. April 26-28, 1999.