wehs7661 / ensemble_mdLinks
A python package for performing GROMACS simulation ensembles
☆13Updated last month
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☆13Updated last month
- Enhanced sampling methods for molecular dynamics simulations☆37Updated 2 years ago
- Set up relative free energy calculations using a common scaffold☆24Updated 2 months ago
- Automatic Mutual Information Noise Omission☆15Updated 8 months ago
- A python implementation of the string method with swarms of trajectories using GROMACS☆18Updated 2 years ago
- Temperature generator for Replica Exchange MD simulations☆28Updated 2 years ago
- ☆12Updated last week
- Examples of applications of pymbar to various problems in simulation and experiment☆21Updated 10 years ago
- Absolute solvation free energy calculations with OpenFF and OpenMM☆22Updated 6 months ago
- Tutorials of few enhanced sampling methods along with bash script to run the method in a single shot..☆46Updated 4 years ago
- Density based object completion over PBC.☆30Updated 6 months ago
- Python code for generating Boresch restraints from MD simulations☆22Updated 2 years ago
- PARENT: a parallel software suite for the calculation of configurational entropy in biomolecular systems☆15Updated 3 years ago
- ☆36Updated 9 months ago
- Random Acceleration Molecular Dynamics in GROMACS☆37Updated 11 months ago
- ☆29Updated last month
- Robust Equilibration Detection☆22Updated 2 months ago
- MM and QM/MM setup for a metalloprotein using GROMACS, Chemshell and ORCA (Using the CHARMM forcefield (both in GROMACS and with Chemshe…☆23Updated last year
- Rethinking Metadynamics: From Bias Potentials to Probability Distributions☆12Updated last year
- A Deep Neural Network to predict small molecule torsion energy profiles with the accuracy of QM☆39Updated 2 years ago
- A Python module for carrying out GCMC insertions and deletions of water molecules in OpenMM.☆70Updated 2 years ago
- Materials for 2023 workshop at CCPBioSim Training Week https://www.ccpbiosim.ac.uk/events/upcoming-events/eventdetail/104/-/training-week☆30Updated last year
- ☆29Updated last year
- A simple implementation of replica exchange MD simulations for OpenMM.☆23Updated 3 years ago
- Algorithms for various Network Layouts and Tooling for planning FE Calculations☆19Updated last week
- Reweighted Autoencoded Variational Bayes for Enhanced Sampling (RAVE)☆43Updated 5 years ago
- Implicit Solvent Approach Based on Generalised Born and Transferable Graph Neural Networks for Molecular Dynamics Simulations☆41Updated last month
- OpenMM scripts for polarisable molecular dynamics with the AMOEBA force field☆24Updated 5 years ago
- Spectral Gap Optimization of Parameters☆18Updated 5 years ago
- Collective variables by artificial neural networks☆9Updated 3 years ago