EMBC'12 Workshop: Software Tools for Image Based Modeling, Simulation, and Visualization

The goal of this tutorial is to introduce participants to a suite of software tools for image-based modeling, simulation, and visualization developed by the NIH/NIGMS Center for Integrative Biomedical Computing (CIBC). This portable flexible collection of interactive tools was designed in particular to support the development of subject specific, image based geometric models for simulation of bioelectric fields, but suite as well as its individual components have been applied to a wider set of problems. The tools in the suite are: ImageVis3D, for visualization of large scale data; Seg3D, for general purpose user-guided image segmentation; BioMesh3D, a set of utilities for creating surface and volume meshes from segmented image data; map3d, for visualization of surface based maps from multichannel time signals; and SCIRun, a comprehensive problem solving environment that integrates many of the capabilities of an entire image based modeling pipeline.

The tutorial will be a mix of didactic presentations on the component steps of image based modeling, simulation, and visualization; hands on practice with the software, and cases studies on real world applications.

We will provide participants with the software and test data sets and encourage participants to bring their laptop computers ,and if relevant their own data as well. CIBC staff and developers will be on hand to help participants learn the programs, port their data, and generate useful results. We especially encourage participation by students, post docs, and technical users and software developers.