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.


NNSA-COEs newsPress Release from the National Nuclear Security Administration Website, June 27, 2013.

WASHINGTON, D.C. – The National Nuclear Security Administration (NNSA) today announced the selection of its six new centers of excellence whose primary focus will be on the emerging field of predictive science.

Six universities were selected either as a Multidisciplinary Simulation Center (MSC) or as a Single-Discipline Center (SDC). The MSCs will receive $3.2 million and the SDCs will receive $1.6 million each year for five years under NNSA's Predictive Science Academic Alliance Program II (PSAAP II) agreement.

Schott TVCG2013 newsCongratulations to Harsh Bhatia, Valerio Pascucci, and Peer-Timo Bremer, et. al. whose paper:

H. Bhatia, G. Norgard, V. Pascucci, P.-T. Bremer. The Helmholtz-Hodge Decomposition - A Survey,” In IEEE Transactions on Visualization and Computer Graphics (TVCG), Vol. 19, No. 8, pp. 1386--1404, Note: Selected as Spotlight paper for August 2013 issue, 2013.

is spotlighted in the August Issue of IEEE Transactions on Visualization and Computer Graphics (TVCG). Their paper surveys the use of the Helmholtz-Hodge Decomposition in modeling flow phenomena in various fields of science and addresses the problem of the fragmented nature of research in this area. The goal of this paper is to promote further research in the field by creating a common repository of HHD techniques and assemble a large collection of example applications in a broad range of areas. See: TVCG August 2013.

HBM Hackathon2013 newsCongratulations to Kris Zygmunt, Wei Liu, and Sean McKenna for winning the second challenge of the 2013 HBM Hackathon sponsored by Allen Institute for Brain Science and Amazon Web Services. The HBM Hackathon consisted of two challenges announced prior to the meeting and a third mystery challenge announced during the meeting. These challenges were:

1. Best imaging and gene expression relationship discovered via integration of imaging data with the Allen Human Brain Atlas.

2. Best neural systems model or visualization based on large-scale integration of resting state fMRI data with other HBM Hackathon accessible datasets.

3. MNI Mash-up: Most innovative map or aggregation of information in the MNI 152 standard.

Ross-CCC newsCongratulations to SCI faculty member Ross Whitaker who has been selected to serve on the Computing Research Association's (CRA) Computing Community Consortium (CCC). The CCC is an organization whose goal is to catalyze and empower the U.S. computing research community to pursue audacious, high-impact research. Dr. Whitaker will serve a three-year term on the council.

For more information about the CCC see
See original article on Explore Utah Science website: "When Art and Science Intertwine"
Written by  Julie Kiefer

ExpUtahScience newsThe collection of images appears to be a study in shape, color, and design. Zig-zagging lines that meld into smoke-like ribbons; an explosion of colors that seemingly blasts beyond the frame; a brain washed in pastels (see Image Gallery below). What at first glance looks like art is actually much more. Each piece is a window into scientific discovery.

EGPGV-bestpaper2013 newsCongratulations to Sujin Philip, Brian Summa, Julien Tierny, Peer-Timo Bremer, and Valerio Pascucci whose paper:

S. Philip, B. Summa, J. Tierny, P.-T. Bremer, V. Pascucci. Scalable Seams for Gigapixel Panoramas,” In Proceedings of the 2013 Eurographics Symposium on Parallel Graphics and Visualization, Note: Awarded Best Paper!, pp. (to appear). 2013.

won "Best Paper" at the 2013 Eurographics Symposium on Parallel Graphics and Visualization. Their paper presents a fast and efficient method for blending seams between images in very large panoramas composed of mosaics of smaller images. While current methods may take many hours (or even days) to blend the images composing a gigapixel panorama, the new method takes just a few minutes.
crj-FiRe2013 newsDr. Johnson will be a featured speaker at the 2013 Future in Review (FiRe 2013) conference. He will be among a number of other distinguished guests including the Secretary of the Department of Homeland Security, Mdme. Janet Napolitano. The conference will be held May 21 - 24 in Laguna Beach, California. This year's conference is unified under the theme "Digitizing the Planet." For more details visit the Future in Review website.
ISBI BestPaper2013 newsCongratulations to Nikhil Singh, Jacob Hinkle, Sarang Joshi and Tom Fletcher whose paper was awarded "Best Student Paper" at the ISBI 2013 Conference.

N.P. Singh, J. Hinkle, S. Joshi, P.T. Fletcher. A Vector Momenta Formulation of Diffeomorphisms for Improved Geodesic Regression and Atlas Construction,” In IEEE Proceedings of ISBI 2013, Note: Received Best Student Paper Award, 2013.

crj-CRA newsSCI Institute Director Chris Johnson has been elected a new member of the Computing Research Association (CRA) Board of Directors. Johnson's three-year term on the board will begin July 1, 2013. The CRA “is an association of more than 200 North American academic departments of computer science, computer engineering, and related fields; laboratories and centers in industry, government, and academia engaging in basic computing research; and affiliated professional societies” (Source: CRA's mission is to strengthen research and advanced education in the computing fields, expand opportunities for women and minorities, and improve public and policymaker understanding of the importance of computing and computing research in our society. The CRA Board of Directors is made up of distinguished computing researchers in academia and industry and members are elected by their peers.

See: "2013 CRA Board Election Results"
fluorender newsWe are happy to announce the 2.12 release of FluoRender. For details, check the release notes and download FluoRender at

Release Notes

FluoRender 2.12