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Molecular Dynamics Tutorial for Beginners

Molecular Dynamics Tutorial for Beginners

Module 1: Introduction to Molecular Simulations
Module 2: The Physics Behind MD
Module 3: Non-Bonded Interactions and Long-Range Electrostatics
Module 4: Simulating Simple 1D Systems
Module 5: The Challenge of Sampling
Supplement: Choosing Good Collective Variables for Multi-Dimensional Systems
Module 6: Enhanced Sampling I - Umbrella Sampling (US) & PMF Reconstruction
WHAM, step by step (with plots)
Module 7: Enhanced Sampling II - Metadynamics (MetaD)
Module 8: Multi-Particle Simulations: Lennard-Jones Fluid with ASE

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