3 D IMAGE RECONSTRUCTION, GEOMETRY FEATURE EXTRACTION, & GRID GENERATION

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This subproject is one of many research subprojects utilizing the resources provided by a Center grant funded by NIH/NCRR. The subproject and investigator (PI) may have received primary funding from another NIH source, and thus could be represented in other CRISP entries. The institution listed is for the Center, which is not necessarily the institution for the investigator. One of the critical steps in the process of producing a general purpose cell simulation capability is being able to generate discrete computational volume meshes with bounding surfaces and perform computations upon these discrete meshes. For representing spatially and temporally localized effects, which result from explicit geometric features or heterogeneous function distributions, a tool that transforms geometry definitions into computable meshes is required. Geometries within the Virtual Cell are now decomposed into three components; 1) a volume-based specification (an image stack or a set of analytic inside-outside functions), 2) an automatically generated surface representation (smoothed unstructured polyhedral surface mesh), and 3) a topological summary of the geometry (list of all contiguous surfaces and volume regions with size metrics and adjacency relationships). The topological summary will form the basis for automating non-spatial (well mixed) approximations for any spatial simulation.