We have developed KIMMDY (Kinetic Monte Carlo / Molecular Dynamics), a hybrid simulation scheme that incorporates reactivity into Molecular Dynamics (MD) simulations using GROMACS.
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We have developed GRAPPA (Graph Attentional Protein Parametrization), a machine-learned Molecular Dynamics Force Field, which is capable of predicting force-field parameters for a wide range of molecules.
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Force distribution analysis (FDA) is a method to detect and follow force and stress propagation in proteins, reminiscent of Finite Element Analysis used to engineer macroscopic structures.
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