markovmodel / pyemma-workshopLinks
☆31Updated 3 years ago
Alternatives and similar repositories for pyemma-workshop
Users that are interested in pyemma-workshop are comparing it to the libraries listed below
Sorting:
- Enhanced sampling methods for molecular dynamics simulations☆41Updated 2 years ago
- Examples of applications of pymbar to various problems in simulation and experiment☆23Updated 10 years ago
- Repository for MD methods and analysis from submitted or published work☆19Updated 2 years ago
- ☆39Updated last year
- ☆65Updated 3 months ago
- Package for consistent reporting of relative free energy results☆40Updated last week
- Temperature generator for Replica Exchange MD simulations☆29Updated 2 years ago
- Using supervised machine learning to build collective variables for accelerated sampling☆28Updated 7 years ago
- Ensembler is a python package that provides fast and easy access to 1D and 2D model system simulations. It can be used for method develop…☆55Updated last year
- A python module for flexible Poisson-Boltzmann based pKa calculations with proton tautomerism☆62Updated last year
- COBY (Coarse Grained System Builder) can be used to create coarse-grained systems in Martini 3☆42Updated 3 weeks ago
- A. Alenaizan's restricted electrostatic potential (RESP) plugin to Psi4☆34Updated 5 months ago
- Toolkit for open antiviral drug discovery by the ASAP Discovery Consortium☆45Updated last month
- ☆13Updated 4 months ago
- Several QM/MM tutorials for biological simulations adapted to CP2K. Tutorials adapted from AMBER, GMX, NAMD and CPMD softwares.☆22Updated 6 years ago
- A Python module for carrying out GCMC insertions and deletions of water molecules in OpenMM.☆72Updated 2 years ago
- Notebooks demonstrating how to do simple tasks related to free energy calculations.☆55Updated this week
- MDANCE is a flexible n-ary clustering package for all applications.☆94Updated 2 weeks ago
- Conformer-Rotamer Ensemble Sampling Tool based on the xtb Semiempirical Extended Tight-Binding Program Package☆34Updated 3 months ago
- Set up relative free energy calculations using a common scaffold☆24Updated 3 months ago
- Solvation Structure and Thermodynamic Mapping☆40Updated last year
- In-house tools for setting up arbitrary solute-solvent mixtures for simulation in GROMACS, Amber, OpenMM or other codes☆33Updated 5 years ago
- Sample inputs and tutorial for GROMACS-2022/CP2K QMMM interface☆39Updated 4 years ago
- Tutorials of few enhanced sampling methods along with bash script to run the method in a single shot..☆49Updated 4 years ago
- scripts for analyzing molecular dynamics trajectories using VMD☆39Updated 10 years ago
- A comprehensive toolkit for predicting free energies☆58Updated 10 months ago
- A simple implementation of replica exchange MD simulations for OpenMM.☆24Updated 4 years ago
- Given an RDKit molecule that does not sanitise, correct it until it does☆42Updated last year
- Q6 Repository -- EVB, FEP and LIE simulator.☆35Updated 2 years ago
- ☆12Updated last year