tsudalab / TSMD
Tree Search Molecular Dynamics Simulation
☆10Updated 5 years ago
Alternatives and similar repositories for TSMD:
Users that are interested in TSMD are comparing it to the libraries listed below
- To run metadynamics simulations using openMM (based on Peter Eastman's script)☆12Updated 6 years ago
- Challenge details, inputs, and (eventually) results for the SAMPL8 series of challenges☆23Updated last month
- Code to accompany "Practical Cheminformatics With Open Source Software"☆16Updated 3 years ago
- Absolute solvation free energy calculations with OpenFF and OpenMM☆21Updated 3 months ago
- Code for paper "Human-in-the-Loop Assisted de Novo Molecular Design".☆23Updated 2 years ago
- McDock: Simple Monte Carlo docking algorithm in C++☆10Updated 8 years ago
- Software tools for fragment-based drug discovery (FBDD)☆27Updated 4 years ago
- A simple yet versatile toolkit to setup quantum mechanical/molecular mechanical (QM/MM) calculations from molecular dynamics trajectories…☆28Updated last year
- A Python program for QM/MM Simulations based on the Perturbed Matrix Method☆25Updated last year
- PyL3dMD: Python LAMMPS 3D Molecular Descriptors Package☆28Updated 9 months ago
- Tools to build coarse grained models and perform simulations with OpenMM☆22Updated 2 years ago
- Examples of applications of pymbar to various problems in simulation and experiment☆20Updated 10 years ago
- Workshop - Analysis of Molecular Dynamics Simulation Using Python☆17Updated 4 years ago
- Computational Chemistry☆22Updated 5 months ago
- ☆17Updated 4 years ago
- Genetic algorithm to convert 3D-RISM solvent densities to explicit water molecules in binding pockets☆11Updated 7 years ago
- Several QM/MM tutorials for biological simulations adapted to CP2K. Tutorials adapted from AMBER, GMX, NAMD and CPMD softwares.☆22Updated 5 years ago
- ☆15Updated 2 years ago
- CReM-dock: generation of chemically reasonable molecules guided by molecular docking☆23Updated this week
- WaterDock-2.0 implementation with Akshay Sridhar☆15Updated last year
- Tutorial for the usage of the dcTMD approach and Langevin simulations employing the trypsin-benzamidine complex as example.☆9Updated 8 months ago
- Lee-Ping's general purpose script for running OpenMM molecular dynamics simulations☆27Updated 10 months ago
- ☆29Updated last year
- Implementation of MOFF force field. Please cite us at Latham, A; Zhang, B J. Chem. Theory Comput. 2021, 17, 3134. (https://pubs.acs.org/d…☆9Updated 2 years ago
- Scripts, inputs and the results generated as part of the training the Sage line of OpenFF force fields.☆21Updated last year
- Modeling Tanimoto distributions for RDKit☆17Updated 5 years ago
- Accelerating Metadynamics-Based Free-Energy Calculations with Adaptive Machine Learning Potentials☆13Updated 3 years ago
- ☆8Updated 5 years ago
- https://arxiv.org/abs/2102.11439☆20Updated 3 years ago
- Repository for Chemical Perception Sampling Tools☆20Updated 7 months ago