Designed especially for neurobiologists, FluoRender is an interactive tool for multi-channel fluorescence microscopy data visualization and analysis.
Large scale visualization on the Powerwall.
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

2008


S.X. Vasquez, M.S. Hansen, A.N. Bahadur, M.F. Hockin, G.L. Kindlmann, L. Nevell, I.Q. Wu, D.J. Grunwald, D.M. Weinstein, G.M. Jones, C.R. Johnson, J.L. Vandeberg, M.R. Capecchi, C. Keller. “Optimization of Volumetric Computed Tomography for Skeletal Analysis of Model Genetic Organisms,” In The Anatomical Record: Advances in Integrative Anatomy and Evolutionary Biology, Vol. 291, pp. 475--487. 2008.
PubMed ID: 18286615


2006


S. Browd, L.J. Healy, G. Dobie, J.T. Johnson III, G.M. Jones, L.F. Rodriguez, D.L. Brockmeyer. “Morphometric and Qualitative Analysis of Congenital Occipitocervical Instability in Children: Implications for Down Syndrome Patients,” In Journal of Neurosurgery: Pediatrics, Vol. 105, No. 1 , Journal of Neurosurgery Publishing Group, pp. 50--54. July, 2006.
DOI: 10.3171/ped.2006.105.1.50



J.T. Johnson III, M.S. Hansen, I. Wu, L.J. Healy, C.R. Johnson, G.M. Jones, M.R. Capecchi, C. Keller. “Virtual Histology of Transgenic Mouse Embryos for High-Throughput Phenotyping,” In PLoS Genetics, Vol. 2, No. 1, pp. 471--477. April, 2006.



J.T. Johnson III, M.S. Hansen, I.Q Wu, L.J. Healy, C.R. Johnson, G.M. Jones, M.R. Capecchi, C.Keller. “Virtual Histology of Transgenic Mouse Embryos for High-Throughput Phenotyping,” In Proceedings of the Teratology 46th Annual Meeting, Tucson, AZ, 2006.


2005


P. Hawkes, G. Kindlmann, D. Weinstein, G.M. Jones, C. Keller. “Practical Vessel Imaging by Computed Tomography in Live Transgenic Mouse Models for Human Tumors,” In Proceedings of 2005 SMI Conference, 4th Annual Meeting of the Society for Molecular Imaging, Cologne, Germany, 2005.



G.L. Kindlmann, D.M. Weinstein, G.M. Jones, C.R. Johnson, M.R. Capecchi, C. Keller. “Practical Vessel Imaging by Computed Tomography in Live Transgenic Mouse Models for Human Tumors,” In Journal of Molecular Imaging, Vol. 4, No. 4, pp. 417--424. 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


2004


J. Cates, R.T. Whitaker, G.M. Jones. “Case Study: An Evaluation of User-Assisted Hierarchical Watershed Segmentation,” No. UUCS-04-006, University of Utah School of Computing, 2004.


2003


C.C. Douglas, M. Cole, Y. Efendiev, R. Ewing, V. Ginting, C.R. Johnson, G.M. Jones, R. Lazarov, C. Shannon, J. Simpson. “Workshop on Dynamic Data-Driven Application Systems,” In ICCS 2003, Melbourne, Australia, June 2-3, 2003.



C.C. Douglas, C.E. Shannon, Y. Efendiev, R.E. Ewing, V. Ginting, R. Lazanov, M.J. Cole, G.M. Jones, C.R. Johnson, J. Simpson. “A Note on Dynamic Data Driven Application Simulation (DDDAS) Using Virtual Telemetry,” In International Conference on Parallel Algorithms and Computing Environments, pp. pp.193--198. 2003.