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From Genes To Organisms Via The Cell: A Problem Solving Environment For Multicellular Development

Trevor Cickovski, Kedar Aras, Mark S. Alber, Jesus A. Izaguirre, Maciej Swat, James A. Glazier, Roeland M. H. Merks, Tilmann Glimm, H. George E. Hentschel, Stuart A. Newman. 2007. From Genes To Organisms Via The Cell: A Problem Solving Environment For Multicellular Development. Computing in Science and Engineering, 9(4), 50-60.

To gain performance, developers often build scientific applications in procedural languages, such as C or Fortran, which unfortunately reduces flexibility. To address this imbalance, the authors present CompuCell3D, a multitiered, flexible, and scalable problem-solving environment for morphogenesis simulations that's written in C++ using object-oriented design patterns. doi:10.1109/MCSE.2007.74