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.


Visualization, sometimes referred to as visual data analysis, uses the graphical representation of data as a means of gaining understanding and insight into the data. Visualization research at SCI has focused on applications spanning computational fluid dynamics, medical imaging and analysis, biomedical data analysis, healthcare data analysis, weather data analysis, poetry, network and graph analysis, financial data analysis, etc.

Research involves novel algorithm and technique development to building tools and systems that assist in the comprehension of massive amounts of (scientific) data. We also research the process of creating successful visualizations.

We strongly believe in the role of interactivity in visual data analysis. Therefore, much of our research is concerned with creating visualizations that are intuitive to interact with and also render at interactive rates.

Visualization at SCI includes the academic subfields of Scientific Visualization, Information Visualization and Visual Analytics.


Charles Hansen

Volume Rendering
Ray Tracing

Valerio Pascucci

Topological Methods
Data Streaming
Big Data

Chris Johnson

Scalar, Vector, and
Tensor Field Visualization,
Uncertainty Visualization

Mike Kirby

Uncertainty Visualization

Ross Whitaker

Topological Methods
Uncertainty Visualization
alex lex

Alex Lex

Information Visualization

Bei Wang

Information Visualization
Scientific Visualization
Topological Data Analysis

Centers and Labs:

Funded Research Projects:

Publications in Visualization:

The SCIRun Parallel Scientific Computing Problem Solving Environment
C.R. Johnson, S.G. Parker. In Ninth SIAM Conference on Parallel Processing for Scientific Computing, 1999.

The SCIRun Problem Solving Environment: Implementation within a Distributed Environment
M. Miller, C.D. Hansen, C.R. Johnson. In Ninth SIAM Conference on Parallel Processing for Scientific Computing, Note: extended abstract, 1999.

Interactive Simulation and Visualization
C.R. Johnson, S.G. Parker, C.D. Hansen, G.L. Kindlmann, Y. Livnat. In IEEE Computer, Vol. 32, No. 12, pp. 59--65. Dec, 1999.

Visualizing Multivalued Data from 2D Incompressible Flows Using Concepts from Painting
R.M. Kirby, H. Marmanis, D.H. Laidlaw. In Proceedings of IEEE Visualization 1999, San Francisco, CA, pp. 333--340. October, 1999.

Data and Visualization Corridors: Report on the 1998 DVC Workshop Series
R. Stevens, H. Fuchs, A. van Dam, P. Hanrahan, C.R. Johnson, C. McMillan, P. Heermann, S. Louis, T. Defanti, D. Reed, E. Cohen. Note: DOE Report, September, 1998.

The Department of Energy and the National Science Foundation sponsored a series of workshops on data manipulation and visualization of large-scale scientific datasets. Three workshops were held in 1998, bringing together experts in high-performance computing, scientific visualization, emerging computer technologies, physics, chemistry, materials science, and engineering. These workshops were followed by two writing and review sessions, as well as numerous electronic collaborations, to synthesize the results. The results of these efforts are reported here. Across the government, mission agencies are charged with understanding scientific and engineering problems of unprecedented complexity. The DOE Accelerated Strategic Computing Initiative, for example, will soon be faced with the problem of understanding the enormous datasets created by teraops simulations, while NASA already has a severe problem in coping with the flood of data captured by earth observation satellites. Unfortunately, scientific visualization algorithms, and high-performance display hardware and software on which they depend, have not kept pace with the sheer size of emerging datasets, which threaten to overwhelm our ability to conduct research. Our capability to manipulate and explore large datasets is growing only slowly, while human cognitive and visual perception are an absolutely fixed resource. Thus, there is a pressing need for new methods of handling truly massive datasets, of exploring and visualizing them, and of communicating them over geographic distances. This report, written by representatives from academia, industry, national laboratories, and the government, is intended as a first step toward the timely creation of a comprehensive federal program in data manipulation and scientific visualization. There is, at this time, an exciting confluence of ideas on data handling, compression, telepresence, and scientific visualization. The combination of these new ideas, which we refer to as Da ta and Visualization Corridors (DVC), can raise scientific data understanding to new levels and will improve the way science is practiced

An Integrated Problem Solving Environment: The SCIRun Computational Steering System
S.G. Parker, M. Miller, C.D. Hansen, C.R. Johnson, P.-P. Sloan. In 31st Hawaii International Conference on System Sciences (HICSS-31), Vol. VII, Edited by H. El-Rewini, pub-IEEE, pp. 147--156. January, 1998.

Computer Visualization in Medicine
C.R. Johnson. In National Forum, Vol. Fall, pp. 17--21. 1998.

Computational Steering Software Systems and Strategies
S.G. Parker, D.M. Beazley, C.R. Johnson. In IEEE Computational Science and Engineering, Vol. 4, No. 4, pp. 50--59. 1997.

Computational and Numerical Methods for Bioelectric Field Problems
C.R. Johnson. In Critical Reviews in BioMedical Engineering, Vol. 25, No. 1, pp. 1--81. 1997.

The SCIRun Computational Steering Software System
S.G. Parker, D.M. Weinstein, C.R. Johnson. In Modern Software Tools in Scientific Computing, Edited by E. Arge and A.M. Bruaset and H.P. Langtangen, Birkhauser Press, Boston pp. 1--40. 1997.

We present the design, implementation and application of SCIRun, a scientific programming environment that allows the interactive construction, debugging, and steering of large-scale scientific computations. Using this "computational workbench," a scientist can design and modify simulations interactively via a dataflow programming model. SCIRun enables scientists to design and modify model geometry, interactively change simulation parameters and boundary conditions, and interactively visualize geometric models and simulation results. We discuss the ubiquitous roles SCIRun plays as a computational tool (e.g. resource manager, thread scheduler, development environment), and how we have applied an object oriented design (implemented in C++) to the scientific computing process. Finally, we demonstrate the application of SCIRun to large scale problems in computational medicine. 1.1 Introduction 1.1.1 Visual Computing and Interactive Steering In recent years, the scientific computing commu...

Keywords: scirun, problem solving environments, ncrr, scientific visualization, pse pses problem solving envoronment, bioelectric fields

Applications of Large-Scale Computing and Scientific Visualization in Medicine
SCI Institute Technical Report, C.R. Johnson, D.M. Beazley, Y. Livnat, S.G. Parker, J.A. Schmidt, H.W. Shen, D.M. Weinstein. No. UUSCI-1997-001, University of Utah, 1997.

Cache-rings for Memory Efficient Isosurface Construction
School of Computing Technical Report, D.M. Weinstein, C.R. Johnson. No. UUCS-97-016, University of Utah, Salt Lake City, UT 1997.

Applications of Large-Scale Computing and Scientific Visualization in Medicine
C.R. Johnson, D.M. Beazley, Y. Livnat, S.G. Parker, J.A. Schmidt, H.W. Shen, D.M. Weinstein. In International Journal on Supercomputer Applications and High Performance Computing, 1996.

Isosurfacing in Span Space with Utmost Efficiency
H.W. Shen, C.D. Hansen, Y. Livnat, C.R. Johnson. In IEEE Visualization `96, IEEE Press, pp. 287--294. 1996.

A Near Optimal Isosurface Extraction Algorithm Using the Span Space
Y. Livnat, H.W. Shen, C.R. Johnson. In IEEE Transactions on Visual Computer Graphics, Vol. 2, No. 1, pp. 73--84. 1996.

SCIRun: Applying Interactive Computer Graphics to Scientific Problems
S.G. Parker, C.R. Johnson. In SIGGRAPH (applications/demo), 1996.

Global and Local Vector Field Visualization Using Enhanced Line Integral Convolution
H.W. Shen, C.R. Johnson, K.L. Ma. In Symposium on Volume Visualization, IEEE Press, pp. 63--70. 1996.

MeshView: A tool for exploring 3D unstructured tetrahedral meshes
C.S. Gitlin, C.R. Johnson. In 5th International Meshing Roundtable, pp. 333--345. 1996.

Software Tools for Modeling, Computation, and Visualization in Medicine
C.R. Johnson, R.S. MacLeod, J.A. Schmidt. In CompMed 94 Proceedings, World Scientific, 1995.

Applications in Computational Medicine using SCIRun: A Computational Steering Programming Environment
C.R. Johnson, S.G. Parker. In Supercomputer `95, Edited by H.W. Meuer, Springer-Verlag, pp. 2--19. 1995.