openforcefield / ccpbiosim-2023Links
Materials for 2023 workshop at CCPBioSim Training Week https://www.ccpbiosim.ac.uk/events/upcoming-events/eventdetail/104/-/training-week
☆30Updated last year
Alternatives and similar repositories for ccpbiosim-2023
Users that are interested in ccpbiosim-2023 are comparing it to the libraries listed below
Sorting:
- This pipeline is executing a RE-EDS run for relative free energy calculations. It can be used for example for calculation of hydration fr…☆32Updated 2 months ago
- Tutorials of few enhanced sampling methods along with bash script to run the method in a single shot..☆48Updated 4 years ago
- ☆29Updated 3 weeks ago
- Set up relative free energy calculations using a common scaffold☆24Updated 3 months ago
- Repository for the 2024 OpenFE industry benchmark efforts☆22Updated last month
- Package for consistent reporting of relative free energy results☆39Updated last month
- Algorithms for various Network Layouts and Tooling for planning FE Calculations☆19Updated this week
- ☆37Updated 10 months ago
- A Python module for carrying out GCMC insertions and deletions of water molecules in OpenMM.☆72Updated 2 years ago
- Standalone charge assignment from Espaloma framework.☆40Updated last year
- Recipes and protocols for molecular free energy calculations using the openmmtools/perses and Open Free Energy toolkits☆14Updated 2 weeks ago
- Python code for generating Boresch restraints from MD simulations☆22Updated 2 years ago
- A Deep Neural Network to predict small molecule torsion energy profiles with the accuracy of QM☆39Updated 2 years ago
- Machine Learning model for molecular micro-pKa prediction☆43Updated 10 months ago
- ☆44Updated 3 years ago
- Exploratory work on free energy calculations with GROMACS using "separated topologies" approach (Rocklin et al., 2013).☆27Updated 8 months ago
- An OpenMM plugin that implements the Alchemical Transfer Potential☆40Updated 2 years ago
- COBY (Coarse Grained System Builder) can be used to create coarse-grained systems in Martini 3☆40Updated last week
- ☆65Updated last week
- Tutorial to run AMBER umbrella COM restraint code and derive free energy of transfer profile for methanol through DMPC membrane☆37Updated last year
- A tutorials suite for BioSimSpace.☆25Updated 3 months ago
- RESP with inter- and intra-molecular constraints in Psi4.☆32Updated 2 years ago
- Python package built on NAMD/OpenMM and OpenMMTools to perform binding free energy calculations using the TIES protocol.☆32Updated last year
- Bayesian Multistate Bennett Acceptance Ratio Method☆14Updated last week
- Robust Equilibration Detection☆23Updated 3 months ago
- A. Alenaizan's restricted electrostatic potential (RESP) plugin to Psi4☆33Updated last month
- Examples of applications of pymbar to various problems in simulation and experiment☆22Updated 10 years ago
- This is a SnakeMake based workflow for ABFE calculations that can be easily scaled in a high-throughput manner via Slurm for example.☆50Updated 4 months ago
- A Tutorial for quasi Markov State Model(qMSM) developed by Huang Group, Dept of Chemistry at UW-Madison☆18Updated 2 years ago
- Funnel maker is a set of scripts that sets up funnel metadynamics simulations for protein-ligand binding with PLUMED and OpenMM.☆15Updated last year