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Hy3S uses advanced MPI parallelized hybrid stochastic simulation methods to quickly compute the dynamics of biochemical networks with thousands of species/reactions. Many features included (see Home Page). An easy-to-use GUI (Matlab req) is included.
PARAMESH is a package of Fortran 90 subroutines designed to provide an
application developer with an easy route to extend an existing serial
code which uses a logically cartesian structured mesh into a parallel
code with adaptive mesh refinement(AMR).
A collection of .h macros selected by #defines that support writing C or C++ programs that can be retargeted to Intel SSE, PowerPC, the IBM/Sony CBE, or scalar architectures under recompilation.
ea-fold is a platform to perform protein folding simulations by means of evolutionary algorithms. The program implements a parallelized distributed evolutionary algorithms and a flexible force field.