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GeoSolid3D produces 3D geologic solid models, incorporated into the aquifer and confining units of the USGS ground water models, Modflow and Sutra. Uses GIS data of DEMs, geologic maps, and maps of river, watershed, recharge, and aquifer parameters.
ByoDyn (http://cbbl.imim.es/ByoDyn) is a software tool for the study of biochemical networks within the framework of systems biology. SBML compatible, ByoDyn is a group effort of the Computational Biochemistry and Biophysics Lab.
Molecular Graphics and Dynamics. Molecular model builder. Part of the Ascalaph Designer http://sourceforge.net/projects/asc-designer/ project. Windows & Linux.