weitse-hsu / ensemble_mdLinks
A python package for performing GROMACS simulation ensembles
☆15Updated 3 months ago
Alternatives and similar repositories for ensemble_md
Users that are interested in ensemble_md are comparing it to the libraries listed below
Sorting:
- Bayesian Multistate Bennett Acceptance Ratio Method☆14Updated 2 weeks ago
- Enhanced sampling methods for molecular dynamics simulations☆37Updated 2 years ago
- A simple implementation of replica exchange MD simulations for OpenMM.☆24Updated 4 years ago
- Set up relative free energy calculations using a common scaffold☆24Updated 3 months ago
- Absolute solvation free energy calculations with OpenFF and OpenMM☆22Updated 8 months ago
- Unified Free Energy Dynamics (UFED) simulations with OpenMM☆34Updated last year
- Reweighted Autoencoded Variational Bayes for Enhanced Sampling (RAVE)☆43Updated 5 years ago
- Spectral Gap Optimization of Parameters☆18Updated 5 years ago
- A Python module for carrying out GCMC insertions and deletions of water molecules in OpenMM.☆72Updated 2 years ago
- A python implementation of the string method with swarms of trajectories using GROMACS☆18Updated 2 years ago
- Tutorials of few enhanced sampling methods along with bash script to run the method in a single shot..☆48Updated 4 years ago
- A fast solver for large scale MBAR/UWHAM equations☆39Updated 11 months ago
- Supporting data for the manuscript "Deep learning the slow modes for rare events sampling"☆20Updated last year
- Implicit Solvent Approach Based on Generalised Born and Transferable Graph Neural Networks for Molecular Dynamics Simulations☆44Updated 3 months ago
- Robust Equilibration Detection☆23Updated 3 months ago
- A package for all physics based/related models☆53Updated 10 months ago
- Density based object completion over PBC.☆30Updated 8 months ago
- Automatic Mutual Information Noise Omission☆15Updated 10 months ago
- OpenMM scripts for polarisable molecular dynamics with the AMOEBA force field☆24Updated 5 years ago
- ☆37Updated 11 months ago
- COBY (Coarse Grained System Builder) can be used to create coarse-grained systems in Martini 3☆40Updated 2 weeks ago
- Graph-Based Force Fields Model to parameterize Force Fields by Graph Attention Networks☆9Updated last year
- Random Acceleration Molecular Dynamics in GROMACS☆38Updated last year
- Analysis framework of dissipation-corrected targeted molecular dynamics (dcTMD) simulations.☆15Updated 3 months ago
- Temperature generator for Replica Exchange MD simulations☆28Updated 2 years ago
- MDANCE is a flexible n-ary clustering package for all applications.☆69Updated last month
- ☆44Updated 3 years ago
- ☆29Updated this week
- ☆65Updated 2 weeks ago
- OpenMM plugin to interface with PLUMED☆68Updated 5 months ago