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


F. Yu, Y. Livnat, C.R. Johnson. “An Automatic Adaptive Refinement and Derefinement Method for 3D Elliptic Problems,” In Applied Numerical Mathematics, 1997.


O. Alter, Y. Yamamoto. “Protective Measurement of the Wave Function of a Single Squeezed Harmonic Oscillator State,” In Physical Review A, Vol. 53, No. 5, pp. R2911--R2914. May, 1996.
DOI: 10.1103/PhysRevA.53.R2911

O. Alter, Y. Yamamoto. “Inhibition of the Measurement of the Wavefunction of a Single Quantum System and the Projection Postulate,” In Quantum Physics, Chaos Theory and Cosmology, Edited by M. Namiki and I. Ohba and K. Maeda and Y. Aizawa, American Institute of Physics, pp. 151--172. 1996.
DOI: 10.1103/PhysRevLett.74.4106

O. Alter, Y. Yamamoto. “The Quantum Zeno Effect of a Single System is Equivalent to the Indetermination of the Quantum State of a Single System,” In Quantum Interferometry, Edited by F. De Martini and G. Denardo and Y. Shih, VCH, pp. 539--544. 1996.
DOI: 10.1103/PhysRevA.55.R2499

O. Alter, Y. Yamamoto. “The Unknown Wavefunction of a Single System Cannot Be Inferred Using Repeated Quantum Measurements,” In Quantum Coherence and Decoherence, Edited by K. Fujikawa and Y. A. Ono, Elsevier Science, Amsterdam, Netherlands, pp. 31--34. 1996.

C.L. Bajaj, V. Pascucci, D.R. Schikore. “Fast Isocontouring for Improved Interactivity,” In 1996 Volume Visualization Symposium, IEEE Computer Society, pp. 39--46. October, 1996.
ISBN: 0-89791-741-3

C.L. Bajaj, V. Pascucci. “Splitting a Complex of Convex Polytopes in any Dimension,” In Proceedings of the Twelfth Annual Symposium On Computational Geometry (ISG '96), ACM Press, New York pp. 88--97. May, 1996.
ISBN: 0-89791-832-0

C.L. Bajaj, F. Bernardini, V. Pascucci, D.R. Schikore. “Interrogative Visualization of the Visible Human Datasets,” In Proceedings of the The Visible Human Project Conference, 1996.

D.M. Beazley. “Using SWIG to control, prototype, and debug C programs with Python,” In 4th International Python Conference, 1996.

M. Berzins, T.H.C. Childs, G.R. Ryder. “The Selective Laser Sintering of Polycarbonate,” In CIRP Annals, Vol. 45, No. 1, pp. 187--190. 1996.
ISSN: 0007-8506
DOI: 10.1016/S0007-8506(07)63044-3

M. Berzins, J.M. Ware. “Solving Convection and Convection Reaction Problems Using the M.O.L.,” In Applied Numerical Mathematics, Vol. 20, pp. 83--99. 1996.

M.L. Cooper, A.D. Lanterman, S.C. Joshi, M.I. Miller. “Representing The Variation of Thermodynamic State Via Principal Components Analysis,” In Proceedings of the Third Workshop On Conventional Weapon ATR, pp. 481--490. November, 1996.

C.S. Gitlin, C.R. Johnson. “MeshView: A tool for exploring 3D unstructured tetrahedral meshes,” In 5th International Meshing Roundtable, pp. 333--345. 1996.

J.W. Haller, G.E. Christensen, S.C. Joshi, J.W. Newcomer, M.I. Miller, J.G. Csernansky, M. Vannier. “Hippocampal MR Imaging Morphometry by Means of General Pattern Matching,” In Radiology, Vol. 199, No. 3, pp. 787--791. June, 1996.

C.R. Johnson, D.M. Beazley, Y. Livnat, S.G. Parker, J.A. Schmidt, H.W. Shen, D.M. Weinstein. “Applications of Large-Scale Computing and Scientific Visualization in Medicine,” In International Journal on Supercomputer Applications and High Performance Computing, 1996.

C.R. Johnson, R.S. MacLeod. “Local regularization and adaptive methods for the inverse Laplace problem,” In Biomedical and Life Physics, Edited by D.N. Ghista, Vieweg-Verlag, Braunschweig pp. 224--234. 1996.

R.N. Klepfer, C.R. Johnson, R.S. MacLeod. “The effects of inhomogeneities and anisotropies on electrocardiographic fields: A three-dimensional finite element study,” In IEEE Trans. on Biomedical Engineering, 1996.

Y. Livnat, H.W. Shen, C.R. Johnson. “A Near Optimal Isosurface Extraction Algorithm Using the Span Space,” In IEEE Transactions on Visual Computer Graphics, Vol. 2, No. 1, pp. 73--84. 1996.

E. Nurgat, M. Berzins. “A new relaxation scheme for solving EHL Problems,” In 23rd Leeds-Lyon Symposium on Tribology, Tribology Series, Vol. 32, Edited by D.Dowson et al., Elsevier, pp. 125a-134. 1996.
ISBN: 0444828095


A New Relaxation Scheme (NRS) is presented in this paper to solve Elasto Hydrodynamic Lubrication (EHL) point contact problems. The solutions obtained are compared with those obtained by Ehret [6] who employed the Distributive Relaxation Scheme (DRS) of Venner [2]. Results obtained using the two schemes are in close agreement which is very encouraging although it is too early to draw any conclusions. The new relaxation scheme thus provides an alternative approach to the distributive relaxation scheme.

E. Nurgat, M. Berzins. “A new relaxation scheme for solving EHL Problems,” In Proceedings of 23rd Leeds-Lyon Symposium on Tribology, Tribology Series, Vol. 32, Edited by D.Dowson et al., Elsevier, pp. 125A--134. 1996.
ISBN: 0444828095