Molecular Simulation Methods with Gromacs

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Optional Question: How do we correct for using the pull code: what is thecontribution to the free energy of applying a quadratic potential to a molecule?

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Optional Question: How do we correct for using the pull code: what is thecontribution to the free energy of applying a quadratic potential to a molecule?

Page 1 and 2: Molecular SimulationMethods with Gr
Page 3 and 4: state. The free energy differences,
Page 5 and 6: We’ll do this coupling our molecu
Page 7: emtol = 10 ; stop if forces reach t
Page 12 and 13: To run, we’ll create a set of bat

Molecular Simulation Methods with Gromacs

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