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

2007


 N. Sadeghi, T. Tasdizen, N.L. Foster, A.Y. Wang, S. Minoshima, A.P. Lieberman.. “Automatic Classification of Alzheimers Disease vs. Frontotemporal Dementia: A Decision Tree Approach with FDG-PET,” SCI Institute Technical Report, No. UUSCI-2007-016, University of Utah, 2007.


C.E. Scheidegger, H.T. Vo, D. Koop, J. Freire, C.T. Silva. “Querying and Creating Visualizations by Analogy,” In Proceeding of IEEE Visualization 2007, pp. 1560--1567. 2007.


J.F. Shepherd. “Topologic and Geometric Constraint-Based Hexahedral Mesh Generation,” School of Computing, University of Utah, May, 2007.


J.F. Shepherd, C.R. Johnson. “Hexahedral Mesh Generation for Biomedical Models in SCIRun,” SCI Institute Technical Report, No. UUSCI-2007-008, University of Utah, 2007.


S. Shome, R.L. Lux, B.B. Punske, R.S. MacLeod. “Ischemic Preconditioning Protects Against Arrhythmogenesis Through Maintenance of Both Active as well as Passive Electrical Properties in Ischemic Canine Hearts,” In Journal of Electrocardiology, Vol. 40, No. 6 supp, pp. S150--S159. Nov-Dec, 2007.


S. Shome, J.G. Stinstra, C Henriquez, R.S. Macleod. “Influence of Extracellular Potassium and Reduced Extracellular Space on Conduction Velocity During Acute Ischemia: A Simulation Study,” In Journal of Electrocardiology, Vol. 40, No. 4, pp. S5--S6. 2007.


C.T. Silva, J. Freire, S.P. Callahan. “Provenance for Visualizations: Reproducibility and Beyond,” In IEEE Computing in Science and Engineering, Vol. 9, No. 5, pp. 82--89. 2007.


J.G. Stinstra, M. Jolley, M. Callahan, D.M. Weinstein, M. Cole, D.H. Brooks, J. Triedman, R.S. MacLeod. “Evaluation of Different Meshing Algorithms in the Computation of Defibrillation Thresholds in Children,” In Proceedings of the 29th Annual International Conference of the IEEE EMBS, pp. 1422--1425. 2007.


M. Styner, S. Xu, M. El-Sayed, G. Gerig. “Correspondence Evaluation in Local Shape Analysis and Structural Subdivision,” In Proceedings of ISBI 2007, IEEE Press, pp. 1192--1195. 2007.


M. Styner, I. Oguz, S. Xu, D. Pantazis, G. Gerig. “Statistical Group Differences in Anatomical Shape Analysis using Hotelling T2 Metric,” In Proceedings of the 2007 SPIE Medical Imaging Conference, Vol. 6512, 2007.


W.D. Taylor, J.R. MacFall, G. Gerig, K.R. Krishnan. “Structural Integrity of the Uncinate Fasciculus in Geriatric Depression: Relationship with Age of Onset,” In Neuropsychiatric Disease and Treatment, Vol. 3, No. 5, pp. 669--674. 2007.


T.B. Terriberry, J.N. Damon, S.M. Pizer, S. Joshi, G. Gerig. “Population-Based Fitting of Medial Shape Models with Correspondence Optimization,” In Proceedings of Information Processing in Medical Imaging (IPMI '07), Lecture Notes in Computer Science, Vol. 20, pp. 700--712. July, 2007.


L.T. Tran, J. Kim, M. Berzins. “Solving Time-Dependent PDEs using the Material Point Method, A Case Study from Gas Dynamics,” SCI Institute Technical Report, No. UUSCI-2007-010, University of Utah, 2007.


J.K. Triedman, M. Jolley, R.S. MacLeod, J.G. Stinstra, D.H. Brooks, S. Pieper. “A System for Image Based Finite Element Modeling of Novel Defibrillation Strategies,” In Life Science Systems and Applications Workshop, 2007. LISA 2007, pp. 63--66. 2007.


J.K. Triedman, M. Jolley, R.S. MacLeod, J. Stinstra, D.H. Brooks, S. Pieper. “Finite Element Modeling of Novel Defibrillation Approaches in Children and Adults,” In Proc. LISSA Conf., Bethesda, MD, November, 2007.


S.X. Vasquez, A.N. Bahadur, J.T. Johnson III, D.R. Rodriguez, C. Keller. “Severe Runting of a Laboratory Mouse (Mus musculus),” In Lab Animal, Vol. 36, No. 1, pp. 19, 22--23. January, 2007.


H.T. Vo, S.P. Callahan, P. Lindstrom, V. Pascucci, C.T. Silva. “Streaming Simplification of Tetrahedral Meshes,” In IEEE Transactions on Visualization and Computer Graphics, Vol. 13, No. 1, pp. 145--155. Jan/Feb, 2007.


H.T. Vo, S.P. Callahan, N. Smith, C.T. Silva, W. Martin, D. Owen, D.M. Weinstein. “iRun: Interactive Rendering of Large Unstructured Grids,” In Proceedings of the 7th Eurographics Symposium on Parallel Graphics and Visualization (EGPGV 2007), pp. 93--100. 2007.


I. Wald, S. Boulos, P. Shirley. “Ray Tracing Deformable Scenes using Dynamic Bounding Volume Hierarchies,” In ACM Transactions on Graphics, Vol. 26, No. 1, 2007.


I. Wald, H. Friedrich, C.D. Hansen. “Interactive Isosurface Ray Tracing of Time-Varying Tetrahedral Volumes,” SCI Institute Technical Report, No. UUSCI-2007-003, University of Utah, 2007.