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. Walshaw, M. Berzins. “Adaptive Time-dependent CFD on Distributed Unstructured Meshes,” In Parallel Computational Fluid Dynamics: New Trends and Advances, Elsevier Science, pp. 191--198. 1995.

J.M. Ware, M. Berzins. “Adaptive Finite Volume Methods for Time-dependent P.D.E.s.,” In Modeling, Mesh Generation and Adaptive Numerical Methods for PDEs., IMA Volumes in Mathematics and Its Applications Series, Vol. 75, Springer Verlag, pp. 417--430. 1995.

D.M. Weinstein, C.R. Johnson, J.A. Schmidt. “Effects of Adaptive Refinement on the Inverse EEG Solution,” In SPIE, In Experimental and Numerical Methods for Solving Ill-Posed Inverse Problems, Vol. 2570, SPIE, pp. 2--11. 1995.

D.M. Weinstein, C.R. Johnson. “Hierarchical Data Structures for Interactive Volume Visualization,” School of Computing Technical Report, No. UUCS-95-012, University of Utah, Salt Lake City, UT 1995.

R.T. Whitaker. “Algorithms for Implicit Deformable Models,” In Fifth International Conference on Computer Vision'95, pp. 822--827. 1995.


S. Adelson, C.D. Hansen. “Fast Stereoscopic Images with Ray-Traced Volume Rendering,” In Symposium on Volume Visualization, Washington, DC., pp. 3--9. October, 1994.

M. Berzins, J.M. Ware. “Reliable Finite Volume Methods for the Navier Stokes Equations.,” In Numerical methods for the Navier-Stokes equations, Notes on Numerical Fluid Mechanics, No. 47, Edited by F.K. Hebeker and R. Rannacher and G. Wittum, Springer, pp. 1-8. 1994.
DOI: 10.1007/978-3-663-14007-8_1

C.S. Gitlin, C.R. Johnson. “Techniques for Visualizing 3D Unstructured Meshes,” School of Computing Technical Report, No. UUCS-94-018, University of Utah, 1994.

C.D. Hansen T.Crockett, S. Whitman. “Parallel Rendering,” In IEEE Parallel and Distributed Technology, Vol. 2, No. 2, Note: Guest editors' introduction, pp. 7. Summer, 1994.

C.S. Henriquez, C.R. Johnson, K.A. Henneberg, L.J. Leon, A.E. Pollard.. “Large Scale Biomedical Modeling and Simulation: From Concepts to Results,” In Frontiers in Biomedical Computing, Edited by N. Thakor, IEEE Press, Philadelphia 1994.

C.R. Johnson, S.G. Parker. “A Computational Steering Model Applied to Problems in Medicine,” In Supercomputing 94, IEEE Press, pp. 540--549. 1994.

C.R. Johnson, P. Alfeld. “Computational Engineering and Science at the University of Utah,” In IEEE Computational Science and Engineering, pp. 7--9. 1994.

K.L. Ma, J. Painter, C.D. Hansen, M. Krogh. “Parallel Volume Rendering Using Binary-Swap Compositing,” In IEEE Computer Graphics and Applications, Vol. 14, No. 4, pp. 59--68. 1994.

R.S. MacLeod, P.R. Ershler, C.R. Johnson M.A.. “Map3d: Scientific Visualization Program for Multichannel Time Series Data on Unstructured, Three-Dimensional Meshes. Program User's Guide,” School of Computing Technical Report, No. UUCS-94-016, University of Utah, 1994.

R.S. MacLeod, C.R. Johnson, P.R. Ershler. “Construction of a Human Torso Model from Magnetic Resonance Images for Problems in Computational Electrocardiography,” School of Computing Technical Report, No. UUCS-94-017, University of Utah, 1994.

M.I. Miller, S. Joshi, D.R. Maffitt, J.G. McNally, U. Grenander. “Membranes, Mitochondria and Amoebae: Shape Models,” In Journal of Applied Statistics, Vol. 21, No. 1, 2, Edited by Kanti Mardia, pp. 141--163. 1994.

S.G. Parker, D.M. Weinstein, C.R. Johnson. “A Morphing Algorithm for Generating Near Optimal Grids: Applications in Computational Medicine,” School of Computing Technical Report, No. UUCS-94-014, University of Utah, 1994.

S.G. Parker, C.R. Johnson. “Interactive Manipulation of Contour Data Using the Layers Program - User Guide,” School of Computing Technical Report, No. UUCS-94-014, University of Utah, 1994.

S.V. Pennington, M. Berzins. “New NAG Library Software for First-Order Partial Differential Equations,” In ACM Transactions on Mathematical Software, Vol. 20, No. 1, pp. 63--99. March, 1994.

H.W. Shen, P.B. Gharpure, C.R. Johnson. “Visualization of 3-D wave prorogation in the heart - a new technique,” In IEEE Engineering in Medicine and Biology Society 16th Annual International Conference, IEEE Press, pp. 684--685. 1994.