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 Institute Technical Exchange (SCI X)

SCI X was created to strengthen the interactions between the SCI Institute and other academic researchers, and also those companies conducting or wishing to conduct research with the University and inspire them to increase their collaborative efforts in research and new product development. 

SCI X is intended to provide its guests access to unique resources and expertise found within the SCI Institute, creating an expanded relationship between the SCI  Institute and our past, present and future academic and industry collaborators.

This year's Keynote speaker was Dr. James H. Clark.

jim clarkDr. James H. Clark, PhD 1974, Computer Science, University of Utah; BS 1970, MS 1971 Physics, LSU in New Orleans

Upon graduation in 1974, Jim was a Professor at the University of California and at Stanford until 1982, when he formed Silicon Graphics, Inc with a team of graduate students. Silicon Graphics developed the OpenGL Graphics library, making it the universal 3D graphics standard. SGI also developed the widely copied GPU architecture. Both OpenGL and GPU's are pervasively used now in practically all computing devices, including smart phones.

In 1994, he left SGI to form Netscape Communications with Marc Andreessen and a team of students from the University of Illinois. In addition to developing the first production Web Browser, Netscape enabled the first commercial use of the Internet by developing Secure Sockets Layer (SSL), which was later renamed Transport Layer Security (TLS). SSL/TLS is today the most widely debugged, used and distributed security software in computing history. It is the encryption and site authentication standard of the Internet.

Jim has been part of either starting or financing a number of other companies, including MyCFO, WebMD/Healtheon, and Shutterfly. Jim is a principal investor in and on the board of directors of Ibotta and IEX, and is an investor in Mic. He has donated extensively in support of the arts and is a principal contributor to the Perlman Music Program.

Most recently, Jim is cofounder and CEO of CommandScape, Inc, which is a commercial & home security and automation company. CommandScape has developed hardware and software to combine many building control and automation functions into a single application that uses SSL/TLS for its user authentication model.

Winners of the SCIx drawing for gift cards are:

Steven LaBelle - $200
Doug Steel - $100
Riddhish - $50

Thanks to everyone who entered!

University Promo for SCI X 2011

University Coverage of SCI X 2011

SCI X 2016
SCI X 2012
SCI X 2011

SCI X, November 16th, 2016



Dr. Jim Clark
Founder of Netscape, SGI, WEBMD/Healtheon,
and cofounder and CEO of CommandScape, Inc

Posters and Demos

Scientific Visualization


  • FluoRender: Yong Wan
  • Neuron Microscopy Data Tracing in Virtual Reality: Pavol Klacansky and Will Usher
  • Intel’s OSPRay Renderer on a Displaywall: Laura Lediaev
  • OpenSpace: Gene Payne, Matthew Territo




  • ShapeWorks: Praful Agrawal
  • Shape Variation Animation: Rhiddish Bhalodia

Biomedical Computing

Scientific Computing


SCI X, November 13th, 2012



Dr. Alan Kay
President and Founder, Viewpoints Research Institute

Posters and Demos


Faculty: Chris Johnson, Miriah Meyer, Chuck Hansen


Faculty: Martin Berzins, Chris Johnson, Mike Kirby, Ross Whitaker

Center for Extreme Data Management, Analysis and Visualization (CEDMAV)

Faculty: Valerio Pascucci


Faculty: Tolga Tasdizen, Chuck Hansen

Image Processing

Faculty: Guido Gerig, Ross Whitaker, Sarang Joshi

Shape Analysis

Faculty: Sarang Joshi, Tom Fletcher, Guido Gerig, Ross Whitaker

Center for Integrative Biomedical Computing (CIBC)

Faculty: Chris Johnson, Rob Macleod, Ross Whitaker

Cardiac and Neuro Electrophysiology

Faculty: Rob Macleod
Jess Tate, Kedar Aras, Greg Gardner, Josh Blauer, Darrel Swenson, and Moritz Dannhauer

Genomic Signal Processing

Faculty: Orly Alter
  • Global Copy-Number Alterations Predicting Glioblastoma Multiforme Survival from Comparative Modeling of Patient-Matched Tumor and Normal aCGH Profiles - Benjamin Alpert, Preethi Sankaranarayanan
  • Cross-Platform Validation of a Genomic Pattern for the Prognosis and Assessment of GBM Brain Cancer - Katie Aiello
  • Similarities and Differences between Normal Brain and GBM Tumor Metabolism Uncovered by SVD of Transcript Size Distributions - Nicolas Bertagnolli, Jason Tennessen
  • Capacitive Model of Optically Induced Cell Stimulation May Be Incomplete - Ted Schomay

Computational Biomechanics

Faculty: Jeffrey Weiss

SCI X, November 4th, 2011



Dr. John E Warnock
Co-founder of Adobe Systems, Utah alumnus

ARPA, Graphics at Utah, XEROX, and
The Evolution of the Personal Computer

Panel Discussions:

Posters and Demos

Imaging Research

Image Processing, Pattern Recognition and Connectomics - Tolga Tasdizen

Statistical Analysis of Images and Shape - Tom Fletcher

Neuroimaging Research - Guido Gerig

Image Processing - Ross Whitaker

Brain Imaging - Sarang Joshi

Scientific Computing

Scientific Computing - Mike Kirby

Personalized Heart and Brain Bioelectrical Research - Rob MacLeod

Uintah - Martin Berzins

Musculoskeletal Research - Jeff Weiss

Genomic Signal Processing - Orly Alter

Scientific Visualization

Visualization - Chuck Hansen

Large Data Visualization - Valerio Pascucci

Visualization of Biological Data - Miriah Meyer

Scientific Visualization - Chris Johnson

The Software Development Center

The Software Development Center (SDC) - Greg Jones