dmzuckerman / Sampling-UncertaintyLinks
Best Practices article intended for LiveCoMS
☆42Updated 6 years ago
Alternatives and similar repositories for Sampling-Uncertainty
Users that are interested in Sampling-Uncertainty are comparing it to the libraries listed below
Sorting:
- A document for the Living Journal of Computational Molecular Science (LiveCoMS) which describes basic training for molecular simulations …☆117Updated 7 years ago
- Generate coarse-grained molecular dynamics models from atomistic trajectories.☆64Updated last month
- An open source Python framework for transition interface and path sampling calculations.☆116Updated last month
- Fast PBC wrapping and unwrapping for VMD☆24Updated last year
- Reads Gromacs EDR file to populate a pandas dataframe☆33Updated 3 months ago
- Quickly generate, start and analyze benchmarks for molecular dynamics simulations.☆80Updated last year
- Main code repository for FATSLiM☆23Updated 3 years ago
- A fast solver for large scale MBAR/UWHAM equations☆40Updated last year
- A general small molecule force field descended from AMBER99 and parm@Frosst, available in the SMIRNOFF format☆31Updated 3 weeks ago
- Physical validation of molecular simulations☆57Updated last week
- OpenMM plugin to interface with PLUMED☆73Updated 2 months ago
- OpenMM plugin to define forces with neural networks☆32Updated 6 years ago
- A comprehensive tool for analyzing liquid solvation structure.☆54Updated last month
- Automatic MARTINI parametrization of small organic molecules☆71Updated 7 months ago
- Benchmark sets for binding free energy calculations: Perpetual review paper, discussion, datasets, and standards☆46Updated 4 years ago
- Quantum Mechanical Bespoke Force Field Derivation Toolkit☆103Updated last year
- Bayesian tools for fitting molecular mechanics torsion parameters to quantum chemical data.☆21Updated 4 years ago
- Materials for the 2021 PRACE Workshop @ SurfSARA☆30Updated 4 years ago
- scripts for analyzing molecular dynamics trajectories using VMD☆39Updated 10 years ago
- Martini 3 small molecule database☆68Updated 3 months ago
- (outdated) fork of https://gitlab.com/gromacs/gromacs☆53Updated 2 years ago
- Best practice document for alchemical free energy calculations going to livecoms journal☆81Updated last week
- Automated tools for the generation of bespoke SMIRNOFF format parameters for individual molecules.☆71Updated last week
- A repository for tutorials and FAQ's about LigParGen☆24Updated 7 years ago
- How to analyze molecular dynamics data with PyEMMA☆82Updated 6 years ago
- Spectral Gap Optimization of Parameters☆18Updated 5 years ago
- A stripped-down set of just antechamber, sqm, and tleap.☆33Updated 4 years ago
- Calculation of water/solvent partition coefficients with Gromacs.☆28Updated last year
- MDAnalysis wrapper around Packmol☆36Updated 2 years ago
- An example of how to write a plugin for OpenMM☆31Updated last year