entity-trajectory

PyRod - Tracing water molecules in molecular dynamics simulations

WebGL protein viewer

Public development project of the LAMMPS MD software package

OpenMM is a toolkit for molecular simulation using high performance GPU code.

Detect and characterize binding pockets from molecular simulations.

Toolbox for molecular animations in Blender, powered by Geometry Nodes.

Solvation Structure and Thermodynamic Mapping

A pocket volume analyzer for use in protein modeling.

End-To-End Molecular Dynamics (MD) Engine using PyTorch

MD pharmacophores and virtual screening

Differentiable, Hardware Accelerated, Molecular Dynamics

🏗️ Statistical models for biomolecular dynamics 🏗️

Dynamic pharmacophore modeling of molecular interactions

Fast and All atom Protein-Ligand Interaction Profiler

An open library for the analysis of molecular dynamics trajectories

MDAnalysis is a Python library to analyze molecular dynamics simulations.

A comprehensive macromolecular library

🚂 Python API for Emma's Markov Model Algorithms 🚂

Library for computing dynamic non-covalent contact networks in proteins throughout MD Simulation

Powerful, efficient particle trajectory analysis in scientific Python.