melomcr / dynetanLinks
Python implementation of Dynamical Network Analysis
☆13Updated 2 months ago
Alternatives and similar repositories for dynetan
Users that are interested in dynetan are comparing it to the libraries listed below
Sorting:
- Tutorials of few enhanced sampling methods along with bash script to run the method in a single shot..☆45Updated 4 years ago
- ☆39Updated 10 months ago
- ☆31Updated 7 months ago
- Random Acceleration Molecular Dynamics in GROMACS☆37Updated 10 months ago
- A python implementation of the string method with swarms of trajectories using GROMACS☆18Updated 2 years ago
- ☆65Updated last year
- This is a SnakeMake based workflow for ABFE calculations that can be easily scaled in a high-throughput manner via Slurm for example.☆49Updated 2 months ago
- Gaussian Accelerated Molecular Dynamics (GaMD) is a computational method for both unconstrained enhanced sampling and free energy calcula…☆81Updated last month
- ☆14Updated 5 months ago
- FEP-SPell-ABFE: An Open Source Alchemical Absolute Binding Free Energy Calculation Workflow for Drug Discovery☆63Updated 5 months ago
- An OpenMM plugin that implements the Alchemical Transfer Potential☆40Updated 2 years ago
- The public versio☆54Updated last year
- Tutorial using PLANTS (Protein-Ligand ANTSystem)☆10Updated 10 months ago
- Temperature generator for Replica Exchange MD simulations☆28Updated 2 years ago
- ☆68Updated 11 months ago
- Tutorial on the setup and simulation of a membrane protein with AMBER Lipid21 and PACKMOL-Memgen☆64Updated last year
- A fast solver for large scale MBAR/UWHAM equations☆39Updated 9 months ago
- PyAutoFEP: an automated FEP workflow for GROMACS integrating enhanced sampling methods☆77Updated last year
- Thompson Sampling☆67Updated last month
- ☆74Updated last year
- Tutorial to run AMBER umbrella COM restraint code and derive free energy of transfer profile for methanol through DMPC membrane☆34Updated last year
- Different run and analysis scripts as described in the research guides.☆13Updated 2 years ago
- A Tutorial for quasi Markov State Model(qMSM) developed by Huang Group, Dept of Chemistry at UW-Madison☆16Updated 2 years ago
- ☆54Updated 2 years ago
- Python package built on NAMD/OpenMM and OpenMMTools to perform binding free energy calculations using the TIES protocol.☆32Updated last year
- Automatic Mutual Information Noise Omission☆15Updated 7 months ago
- Codes to use funnel-metadynamics and funnel metadynamics automated protocol☆29Updated 3 years ago
- Machine Learning model for molecular micro-pKa prediction☆41Updated 8 months ago
- Automated Adaptive Absolute alchemical Free Energy calculator☆95Updated this week
- Supporting data for the manuscript "Deep learning the slow modes for rare events sampling"☆20Updated last year