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.
neuroimageThe journal NeuroImage recently released it's list of the top ten most cited articles over the last 5 years. On it was a paper co-authored by Dr. Gerig entitled "User-guided 3D active contour segmentation of anatomical structures: Significantly improved efficiency and reliability". It has been cited 170 times! (Scopus statistics) The paper describes the use of a free software tool called itk-SNAP for efficient segmentation of 3D volumetric image data via 3D snakes. See: NeuroImage Top Cited Articles.

Yushkevich, P.A.; Piven, J.; Hazlett, H.C.; Smith, R.G.; Ho, S.; Gee, J.C.; Gerig, G. "User-guided 3D active contour segmentation of anatomical structures: Significantly improved efficiency and reliability" NeuroImage, Volume 31, Issue 3, Pages 1116-1128, 2006.