Monte Carlo and Molecular Dynamics Simulation Package
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Updated
Jan 29, 2024 - C++
Molecular dynamics allows the atoms and molecules to interact for a fixed period of time, giving a view of the dynamic "evolution" of the system.
Monte Carlo and Molecular Dynamics Simulation Package
A solar system simulator with Verlet, using OpenGL for displaying.
MiniMD Molecular Dynamics Mini-App
The d-SEAMS C++ core engine
⚡ general purpose coarse-grained molecular dynamics simulation package
ls1-MarDyn is a massively parallel Molecular Dynamics (MD) code for large systems. Its main target is the simulation of thermodynamics and nanofluidics. ls1-MarDyn is designed with a focus on performance and easy extensibility.
A program implementing event driven molecular dynamics for hard smooth spheres, using OpenGL for displaying
CHAP is a tool for the functional annotation of ion channel structures:
PCA and normal mode analysis of proteins
Program that implements assembling and disassembling of microtubules
A 3D interactive program for molecular dynamics
Molecular Dynamics Trajectory Analysis Tools
Loop extrusion module with LAMMPS
Features Based Conformational Clustering of MD trajectories. See details at:
MODE-TASK plugin for PyMOL
Data Analysis of MD Simulation
A fast, OpenMP parallelised C++ package that calculates the radial distribution of various local order parameters for water droplets from MD trajectories.
Molecular dynamics simulator implemented with the verlet algorirthm.
Restrained ensemble molecular dynamics method implementation for small angle scattering data.
A tool for the scattering form factors calculation from molecular dynamics trajectories of lipid bilayers.