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


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.

H.W. Shen, C.R. Johnson. “Semi-automatic image segmentation: A bimodel thresholding approach,” School of Computing Technical Report, No. UUCS-94-019, University of Utah, 1994.

H.W. Shen, C.R. Johnson. “Differential volume rendering: A fast alogrithm for scalar field animation,” In Visualization 94, IEEE Press, pp. 180--187. 1994.

C.B. Straight, E.P. France, T.D. Rosenberg, L.E. Paulos, J.A. Weiss. “Soft Tissue Fixation to Bone: A More Biomechanical Analysis of Spiked Soft Tissue Washers,” In American Journal of Sports Medicine, Vol. 22, pp. 339--343. 1994.

D.M. Weinstein, S.G. Parker, C.R. Johnson. “A Physically Based Mesh Generation Algorithm: Applications in Computational Medicine,” In IEEE Engineering in Medicine and Biology Society 16th Annual International Conference, IEEE Press, pp. 718--719. 1994.

S. Whitman, C.D. Hansen, T.W. Crockett. “Recent Developments in Parallel Rendering,” In IEEE Computer Graphics and Applications, Vol. 14, No. 4, Note: Guest editors' introduction, pp. 21--22. July, 1994.

F. Yu, C.R. Johnson. “An Automatic Adaptive Refinement and Derefinement Method,” In Proceedings of the 14th IMACS World Congress, pp. 1555--1557. 1994.


C.M. Bagi, M. Mecham, J.A. Weiss, S.C. Miller. “Comparative Morphometric Changes in Rat Cortical Bone Following Ovariectomy and/or Immobilization,” In Bone, Vol. 14, pp. 877--883. 1993.

F. Bernardini, V. Ferrucci, A. Paoluzzi, V. Pascucci. “Product Operator on Cell Complexes,” In SMA '93: Proceedings of the Second Symposium on Solid Modeling and Applications, Note: held May 19-21, 1993 in Montreal, Quebec, Canada, ACM, pp. 43--52. May, 1993.

M. Berzins, J.M. Ware. “Reliable Finite Volume Methods for Time-Dependent Partial Differential Equations,” In MAFELAP 1993 Highlights, Edited by J.R. Whiteman and John Wiley, pp. 299--306. 1993.

E.P. France, J.A. Weiss, L.E. Paulos. “Allograft Ligament Reconstruction: Biomechanical Issues and Testing,” In Sports Medicine and Arthroscopy Review, Vol. 1, pp. 47--60. 1993.

P.B. Gharpure, C.R. Johnson. “A 3D Cellular Automata Model of the Heart,” In IEEE Engineering in Medicine and Biology Society 15th Annual International Conference, IEEE Press, pp. 752--753. 1993.

C.D. Hansen, S. Tenbrink. “The Impact of Gigabit Network Research on Scientific Visualization,” In The Visual Computer, Vol. 9, No. 6, pp. 318--323. 1993.

C.D. Hansen, M. Krogh. “Visualization on Massively Parallel Computers using CM/AVS,” In AVS Users Conference, Orlando, Fl., pp. 129--137. May, 1993.

P. Hinker, C.D. Hansen. “Geometric Optimization,” In Visualization 1993, San Jose, Ca., pp. 189--195. October, 1993.