msmbuilder / mdentropy
Analyze correlated motions in MD trajectories with only a few lines of Python.
☆32Updated 7 years ago
Alternatives and similar repositories for mdentropy
Users that are interested in mdentropy are comparing it to the libraries listed below
Sorting:
- Applications of nonequilibrium candidate Monte Carlo (NCMC) to ligand binding mode sampling☆33Updated last week
- How to analyze molecular dynamics data with PyEMMA☆75Updated 5 years ago
- Benchmark sets for binding free energy calculations: Perpetual review paper, discussion, datasets, and standards☆42Updated 3 years ago
- Modeling molecular ensembles with scalable data structures and parallel computing☆34Updated last week
- Data visualizations for biomolecular dynamics☆18Updated 6 years ago
- A physical property evaluation toolkit from the Open Forcefield Consortium.☆56Updated 2 weeks ago
- Winter is coming...☆12Updated 6 years ago
- In-house tools for setting up arbitrary solute-solvent mixtures for simulation in GROMACS, Amber, OpenMM or other codes☆32Updated 4 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…☆53Updated last year
- Access to data for workshops and extended tests of MDAnalysis.☆17Updated 7 months ago
- Chemical perception tree automated exploration tool.☆19Updated 6 years ago
- ☆19Updated 4 years ago
- Calculation of water/solvent partition coefficients with Gromacs.☆26Updated 7 months ago
- Dynamic Histogram Analysis To Determine Free Energies and Rates from Biased Simulations☆20Updated 7 years ago
- Encoding of transition probabilities with undirected graphical models☆9Updated 6 years ago
- ☆43Updated 3 years ago
- Dihedral scanner with wavefront propagation☆33Updated last week
- Copernicus☆17Updated 7 years ago
- Exploratory work on free energy calculations with GROMACS using "separated topologies" approach (Rocklin et al., 2013).☆24Updated 5 months ago
- Solvent network analysis. Hop is a python package based on MDAnalysis to analyze solvation dynamics.☆14Updated 6 years ago
- Spectral Gap Optimization of Parameters☆17Updated 5 years ago
- A python framework to run adaptive Markov state model (MSM) simulation on HPC resources☆18Updated last year
- Given an RDKit molecule that does not sanitise, correct it until it does☆41Updated last year
- A stripped-down set of just antechamber, sqm, and tleap.☆31Updated 3 years ago
- Tools for preparation and analysis of systems for molecular dynamics.☆25Updated 2 years ago
- Challenge details, inputs, and results for the SAMPL7 series of challenges☆46Updated 3 years ago
- Tools for creating, analyzing and visualizing Conformation Space Networks☆16Updated 2 years ago
- Bayesian tools for fitting molecular mechanics torsion parameters to quantum chemical data.☆21Updated 3 years ago
- Package for consistent reporting of relative free energy results☆39Updated 2 weeks ago
- Toolkit to aid in the analysis of lipid bilayer molecular simulation trajectories.☆24Updated 4 years ago