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Molecular Dynamics and Monte Carlo
Introduction
Exercises
Basic Concepts of Molecular Dynamics and Monte Carlo Simulations
From Quantum to Classical Mechanics: The Example of Forces
Monte Carlo
\(\pi\)
Appendix: Random and Pseudo-random Numbers
Statistical Thermodynamics and the Boltzmann Distribution
Statistical Thermodynamics and the Boltzmann Distribution
Boltzmann Distribution Harmonic Oscillator
Monte Carlo Simulations and the Photon Gas
Theory
The Photon Gas
The Lennard-Jones Potential
Introduction to Molecular Dynamics
Theory
MD simulation from scratch
Classical Molecular Dynamics (MD) Simulations
Theory
ToyMD
Properties from Molecular Dynamics
Theory
Protein Modelling
Practical: TRP Cage using OpenMM
Repository
Open issue
Index