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

2005


 J.G. Stinstra, B. Hopenfeld, R.S. MacLeod. “On the Passive Cardiac Conductivity,” In Annal. Biomed. Eng., Vol. 33, No. 12, pp. 1743--1751. 2005.


J.G. Stinstra, S. Shome, B. Hopenfeld, R.S. MacLeod. “Modelling Passive Cardiac Conductivity During Ischaemia,” In Med. Biol. Eng. Comput., Vol. 43, No. 6, pp. 776--782. 2005.


Q. Sun, R.T. Burks, P.E. Greis, N.S. Phatak, J.A. Weiss. “Noninvasive Measurement of Meniscus Strain Using Hyperelastic Warping,” In 51st Annual Orthopaedic Research Society Meeting, Vol. 30, pp. 478. 2005.


T. Suzuki, S. Takahashi, J. Shepherd. “An Interior Surface Generation Method for All-Hexahedral Meshing,” In Proceedings of The 14th International Meshing Roundtable, Springer-Verlag, pp. 377--398. September, 2005.


B. Taccardi, B.B. Punske, F. Sachse, X. Tricoche, P. Colli-Franzone, L.F. Pavarino, C. Zabawa. “Intramural Activation and Repolarization Sequences in Canine Ventricles. Experimental and Simulation Studies,” In J. Electrocardiol., Vol. 38, No. 4, pp. 131-137. 2005.


T. Tasdizen, S.P. Awate, R.T. Whitaker, N. Foster. “MRI Tissue Classification with Neighborhood Statistics: A Nonparametric, Entropy-Minimizing Approach,” In Proceedings of The 8th International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI), pp. 517--525. 2005.
PubMed ID: 16685999


T. Tasdizen, R.T. Whitaker, R. Marc, B. Jones. “Enhancement of Cell Boundaries in Transmission Micropscopy Images,” In IEEE International Conference on Image Processing, Vol. 2, pp. 129--132. 2005.


T. Tasdizen, R.T. Whitaker, R. Marc, B. Jones. “Automatic Correction of Non-uniform Illumination in Transmission Electron Microscopy Images,” SCI Institute Technical Report, No. UUSCI-2005-008, University of Utah, 2005.


T. Tasdizen, R.T. Whitaker, R. Marc, B. Jones. “Automatic Correction of Non-uniform Illumination in Transmission Electron Microscopy Images,” SCI Institute Technical Report, No. UUSCI-2005-007, University of Utah, 2005.


T. Terriberry, S. Joshi, G. Gerig. “Hypothesis Testing with Nonlinear Shape Models,” In Information Processing in Medical Imaging (IPMI), Edited by G Christensen and M Sonka, pp. 15--26. July, 2005.


X. Tricoche, C. Garth, G. Scheuermann. “Fast and Robust Extraction of Separation Line Features,” In Scientific Visualization: The Visual Extraction of Knowledge from Data, Edited by G.-P. Bonneau and T. Ertl and G.M. Nielson, Springer, pp. 249--264. 2005.


D. Uesu, L. Bavoil, S. Fleishman, J. Shepherd, C.T. Silva. “Simplication of Unstructured Tetrahedral Meshes by Point Sampling,” In Proceedings of the 2005 International Workshop on Volume Graphics, pp. 157--238. 2005.


A.I. Veress, G.T. Gullberg, J.A. Weiss. “Measurement of Strain in the Left Ventricle with Cine-MRI and Deformable Image Registration,” In ASME J. Biom. Eng., Vol. 127, No. 7, pp. 1195--1207. July 21, 2005.


I. Wald, C. Benthin, A. Efremov, T. Dahmen, J. Gunther, A. Dietrich, V. Havran, H. Seidel, P. Slusallek. “A Ray Tracing based Virtual Reality Framework for Industrial Design,” SCI Institute Technical Report, No. UUSCI-2005-009, University of Utah, 2005.


I. Wald. “DIRmaps : Discretized Incident Radiance Maps for High-Quality Global Illumination Walkthroughs in Complex Environments,” SCI Institute Technical Report, No. UUSCI-2005-010, University of Utah, 2005.


D.M. Weinstein, S.G. Parker, J. Simpson, K. Zimmerman, G.M. Jones. “Visualization in the SCIRun Problem-Solving Environment,” In The Visualization Handbook, Edited by C.D. Hansen and C.R. Johnson, Elsevier, pp. 615--632. 2005.
ISBN: 0-12-387582-X


J.A. Weiss, B.J. Maakestad. “Permeability of Human Medial Collateral Ligament in Compression Transverse to the Collagen Fiber Direction,” In Journal of Biomechanics, Vol. 39, No. 2, pp. 276--283. 2005.


J.A. Weiss, J.C. Gardiner, B.J. Ellis, T.J. Lujan, N.S. Phatak. “Three-Dimensional Finite Element Modeling of Ligaments: Technical Aspects,” In Medical Engineering and Physics, Vol. 27, No. 10, Note: Invited paper for special issue: Advances in the Finite Element Modeling of Soft Tissue Deformation, pp. 845--861. May 21, 2005.


R.T. Whitaker. “Isosurfaces and Level-Sets,” In The Visualization Handbook, Edited by C.D. Hansen and C.R. Johnson, Elsevier, pp. 97--123. 2005.
ISBN: 0-12-387582-X


C. H. Wolters, A. Anwander, X. Tricoche, S. Lew, C.R. Johnson. “Influence of Local and Remote White Matter Conductivity Anisotropy for a Thalamic Source on EEG/MEG Field and Return Current Computation,” In Int.Journal of Bioelectromagnetism, Vol. 7, No. 1, pp. 203--206. 2005.