perses

Simulation framework

An open-source software project exploring chemical space through advanced simulation methods and ensemble techniques.

Experiments with expanded ensembles to explore chemical space

GitHub

183 stars
21 watching
50 forks
Language: Python
last commit: almost 2 years ago
Linked from 1 awesome list

expanded-ensemblesfree-energy-perturbationmolecular-designmolecular-dynamicsopenmmpythonrelative-free-energysimulation

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