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

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.


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.


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.


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

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.R. Johnson, R.S. MacLeod. “Inverse Solutions for Electric and Potential Field Imaging,” In Physiological Imaging, Spectroscopy, andEarlyDetection Diagnostic Methods, Vol. 1887, Edited by R.L. Barbour and M.J. Carvlin, SPIE, pp. 130--139. 1993.


C.R. Johnson, R.S. MacLeod, M.A. Matheson. “Computational Medicine: Bioelectric Field Problems,” In IEEE Computer, Vol. 26, No. 26, pp. 59--67. Oct, 1993.


C.R. Johnson, R.S. MacLeod. “High Performance Computing in Medicine: Direct and Inverse Problems in Cardiology,” In IEEE Engineering in Medicine and Biology Society 15th Annual International Conference, pp. 582--583. 1993.


C.R. Johnson, R.S. MacLeod, M.A. Matheson, C. Zimmerman. “The Body Electric,” In Discover Magazine, pp. 72--77. February, 1993.


R.S. MacLeod, C.R. Johnson, M.A. Matheson. “Visualization of Bioelectric Fields,” In IEEE Computer Graphics and Applications, Vol. 14, pp. 10--12. Jul, 1993.


R.S. MacLeod, C.R. Johnson. “Map3d: Interactive Scientific Visualization for Bioengineering Data,” In Proceedings of the IEEE Engineering in Medicine and Biology Society 15th Annual International Conference, IEEE Press, pp. 30--31. 1993.

1992


 C.R. Johnson, R.S. MacLeod, P.R. Ershler. “A Computer Model for the Study of Electrical Current Flow in the Human Thorax,” In Computers in Biology and Medicine, Vol. 22, No. 5, Elsevier BV, pp. 305--323. 1992.

ABSTRACT

Electrocardiography has played an important role in the detection and characterization of heart function, both in normal and abnormal states. In this paper we present an inhomogeneous, anisotropic computer model of the human thorax for use in electrocardiography with emphasis on the calculation of transthoracic potential and current distributions. Knowledge of the current pathways in the thorax has many applications in electrocardiography and has direct utility in studies pertaining to cardiac defibrillation, forward and inverse problems, impedance tomography, and electrode placement in electrocardiography.

Keywords: scalar field methods, vector field methods, tensor field methods, cardiac heart, scientific visualization


 C.R. Johnson, R.S. MacLeod, M.A. Matheson. “Computer Simulations Reveal Complexity of Electrical Activity in the Human Thorax,” In Computers in Physics, Vol. 6, pp. 230--237. May/June, 1992.


C.R. Johnson, R.S. MacLeod, A. Dutson. “Effects of Anistropy and Inhomogeneity on Electrocardiographic Fields: A Finite Element Study,” In Engineering in Medicine and Biology Society 14th Annual International Conference, IEEE Press, pp. 2009--2010. 1992.


C.R. Johnson, R.S. MacLeod. “Computational Studies of Forward and Inverse Problems in Electrocardiology,” In Biomedical Modeling and Simulation, Edited by J. Eisenfeld and D.S. Levine and M. Witten, Elsevier Science Publishers, Elsevier, Amsterdam pp. 283--290. 1992.


C.R. Johnson, R.S. MacLeod. “Nonuniform Spatial Mesh Adaption Using a Posteriori Error Estimate: Applications to Forward and Inverse Problems,” In Adaptive Methods for Partial Differential Equations, Vol. 14, Edited by J.E. Flaherty and M.S. Shephard, Elsevier, pp. 311--326. 1992.


R.S. MacLeod, C.R. Johnson, M.A. Matheson. “Visualization Tools for Computational Electrocardiology,” In Visualization in Biomedical Computing, pp. 433--444. 1992.