Integration Algorithms for Molecular Dynamics

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Classical Mechanics and Molecular Dynamics

Covers classical mechanics, molecular dynamics, integrators, constant-temperature simulations, and melting point calculations for aluminum.

Computational Neuroscience: Biophysics & Modeling

Covers the fundamentals of computational neuroscience, focusing on biophysics and modeling.

Nonlinear Phenomena in Physics

Explores Poincaré sections, chaos, and strange attractors in nonlinear physics.

Scientific Computing in Neuroscience

Explores scientific computing in neuroscience, emphasizing the simulation of neurons and networks using tools like NEURON, NEST, and BRIAN.

Molecular Dynamics: Liquid Argon Simulation

Covers the molecular dynamics simulation of liquid argon using Lennard-Jones potential and focuses on equilibration and velocity distribution at equilibrium.

Scientific Computing in Neuroscience

Explores the history and tools of scientific computing in neuroscience, emphasizing the simulation of neurons and networks.

Integration Algorithms for Molecular Dynamics: Verlet Algorithm

Explores integration algorithms for Molecular Dynamics, emphasizing the Verlet algorithm and its variants.

Hybrid QM/MM Approaches

Covers Hybrid QM/MM Approaches, explaining system partitioning, MM potential forms, and practical QM/MM implementation.

Biological Scope and Computational Simulation

Explores connecting biological scope with computational simulation methods and discusses various simulation environments for modeling neural activity.

Coarse-Grained Simulations: Basics and Applications

Covers coarse-grained simulations, including advantages, schemes, DPD algorithm, lipid membrane coarse-graining, and setting interaction parameters.