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The molecular mechanics (MM) program Iphigenie provides a broad range of molecular dynamics (MD) methods and technologies, including polarizable force fields (PMM), the HADES reaction field, and QM/(P)MM hybrid simulations.
...It helps solving problems like discovering the shortest paths from a single source vertex using Algorithyms like Dijkstra, Bellman-Ford and Floyd-Warshall, cycle detection, Eulerian circuit, Hamiltonian cycle, conectivity inspection, Breadth First Search, Depth First Search, etc.
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National University Community Research Institute's NU KEEPERRHHATT Algorithmic Framework is a series of meta-algorithms based upon the Longest Hamiltonian Path Problem for finding high level explanations to social, economic and political behaviour.
qsims simulates quantum dynamics with an (almost) arbitrary time-dependent Hamiltonian. qsims uses a Chebychev polynomial expansion of the Schrodinger propagator, and the pseudospectral method developed by R. Kosloff.