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


 G. Adluru, E. Hsu, E.V.R. DiBella. “Constrained Reconstruction of Sparse Cardiac MR DTI Data,” In Proceedings of FIMH 2007, LNCS, No. 4466, pp. 91--99. 2007.


O. Alter. “Genomic Signal Processing: From Matrix Algebra to Genetic Networks,” In Microarray Data Analysis: Methods in Molecular Biology, Vol. 377, Edited by M.J. Korenberg, Humana Press, Totowa, pp. 17--59. 2007.
DOI: 10.1007/978-1-59745-390-5_2


E.W. Anderson, S.P. Callahan, C.E. Scheidegger, J.M. Schriener, C.T. Silva. “Hardware-Assisted Point-Based Volume Rendering of Tetrahedral Meshes,” In Proceedings of SIBGRAPI 2007, pp. 163--170. 2007.


E.W. Anderson, G.A. Preston, C.T. Silva. “Towards Development of a Circuit Based Treatment for Impaired Memory: A Multidisciplinary Approach,” In Proceedings of IEEE EMBS Neural Engineering 2007, pp. 163--172. 2007.


A.E. Anderson, B.J. Ellis, J.A. Weiss. “Verification, Validation and Sensitivity Studies in Computational Biomechanics,” In Computer Methods in Biomechanics and Biomedical Engineering, Vol. 10, No. 3, pp. 171--184. 2007.


E.W. Anderson, S.P. Callahan, D.A. Koop, E. Santos, C.E. Scheidegger, H.T. Vo, J. Freire, C.T. Silva. “VisTrails: Using Provenance to Streamline Data Exploration,” In Poster Proceedings of the International Workshop on Data Integration in the Life Sciences (DILS) 2007, Note: Poster presentation, 2007.


G.A. Ateshian, B.J. Ellis, J.A. Weiss. “Equivalence Between Short-Time Biphasic and Incompressible Elastic Material Response,” In Journal of Biomechanical Engineering, Vol. 129, No. 3, pp. 405--412. 2007.


S. Awate, R.T. Whitaker. “Feature-Preserving MRI Denoising: A Nonparametric Empirical-Bayes Approach,” In IEEE Transactions on Medical Imaging, Vol. 26, No. 9, pp. 1242--1255. 2007.


A.N. Bahadur, I.Q. Wu, D.M. Weinstein, M.D. Davis, D.A. Lewis, P. Kochunov, C. Keller. “Multimodality Chamber for Coregistered Anatomical and Molecular Imaging of Small Animals,” In Lab Animal, Vol. 36, No. 8, pp. 29--35. 2007.


B. Banerjee. “The Mechanical Threshold Stress Model for Various Tempers of AISI 4340 Steel,” In International Journal of Solids and Structures, Vol. 44, No. 3-4, pp. 834--859. February, 2007.
DOI: 10.1016/j.ijsolstr.2006.05.022

ABSTRACT

Numerical simulations of high strain rate and high temperature deformation of pure metals and alloys require realistic plastic constitutive models. Empirical models include the widely used Johnson-Cook model and the semi-empirical Steinberg-Cochran-Guinan-Lund model. Physically based models such as the Zerilli-Armstrong model, the Mechanical Threshold Stress model, and the Preston-Tonks–Wallace model are also coming into wide use. In this paper, we determine the Mechanical Threshold Stress model parameters for various tempers of AISI 4340 steel using experimental data from the open literature. We also compare stress–strain curves and Taylor impact test profiles predicted by the Mechanical Threshold Stress model with those from the Johnson-Cook model for 4340 steel. Relevant temperature- and pressure-dependent shear modulus models, melting temperature models, a specific heat model, and an equation of state for 4340 steel are discussed and their parameters are presented.


 L. Barbosa, J. Freire. “An Adaptive Crawler for Locating Hidden-Web Entry Points,” In Proceedings of the 16th international conference on World Wide Web (WWW), Banff, Alberta, Canada, pp. 441--450. May, 2007.


L. Barbosa, J. Freire. “Combining Classifiers to Identify Online Databases,” In Proceedings of the 16th International Conference on World Wide Web (WWW), Banff, Alberta, Canada, pp. 431--440. May, 2007.


L. Barbosa, J. Freire, A. Silva. “Organizing Hidden-Web Databases by Clustering Visible Web Documents,” In Proceedings of the IEEE 23rd International Conference on Data Engineering, 2007. (ICDE 2007), Istanbul, pp. 326--335. 2007.


L. Barbosa, S. Tandon, J. Freire. “Automatically Constructing a Directory of Molecular Biology Databases,” In Data Integration in the Life Sciences, Lecture Notes in Computer Science (LNCS), Vol. 4544/2007, pp. 6--16. 2007.
ISBN: 978-3-540-73254-9


L. Bavoil, S.P. Callahan, A. Lefohn, J.L.D. Comba, C.T. Silva. “Multi-Fragment Effects on the GPU using the k-Buffer,” In ACM Symposium on Interactive 3D Graphics and Games (i3D), pp. 97--104. 2007.


M.K. Belmonte, J.C. Mazziotta, N.J. Minshew, A.C. Evans, E. Courchesne, S.R. Dager, S.Y. Bookheimer, E.H. Aylward, D.G. Amaral, R.M. Cantor, D.C. Chugani, A.M. Dale, C. Davatzikos, G. Gerig, M.R. Herbert, J.E. Lainhart, D.G. Murphy, J. Piven, A.L. Reiss, R.T. Schultz, T.A. Zeffiro, S. Levi-Pearl, C. Lajonchere, S.A. Colamarino. “Offering to Share: How to Put Heads Together in Autism Neuroimaging,” In Journal of Autism and Developmental Disorders JADD, Vol. 38, pp. 2--13. 2007.


C. Benthin, S. Boulos, D. Lacewell, I. Wald. “Packet-based Ray Tracing of Catmull-Clark Subdivision Surfaces,” SCI Institute Technical Report, No. UUSCI-2007-011, University of Utah, 2007.


J. Bennett, V. Pascucci, K.I. Joy. “Genus Oblivious Cross Parameterization: Robust Topological Management of Intersurface Maps,” In Proceedings of Pacific Graphics 2007, 2007.


F.F. Bernardon, S.P Callahan, J.L.D. Comba, C.T. Silva. “An Adaptive Framework for Visualizing Unstructured Grids with Time-Varying Scalar Fields,” In Journal on Parallel Computing, Vol. 33, No. 6, pp. 391--405. 2007.


F.F. Bernardon, L.K. Ha, S.P. Callahan, J.L.D. Comba, C.T. Silva. “Interactive Transfer Function Specification for Direct Volume Rendering of Disparate Volumes,” SCI Institute Technical Report, No. UUSCI-2007-007, University of Utah, 2007.