dspoel / remd-temperature-generator
Temperature generator for Replica Exchange MD simulations
☆25Updated last year
Related projects ⓘ
Alternatives and complementary repositories for remd-temperature-generator
- Tutorials of few enhanced sampling methods along with bash script to run the method in a single shot..☆41Updated 3 years ago
- Materials for 2023 workshop at CCPBioSim Training Week https://www.ccpbiosim.ac.uk/events/upcoming-events/eventdetail/104/-/training-week☆30Updated last year
- Python package built on NAMD/OpenMM and OpenMMTools to perform binding free energy calculations using the TIES protocol.☆32Updated 10 months ago
- Tutorial to run AMBER umbrella COM restraint code and derive free energy of transfer profile for methanol through DMPC membrane☆30Updated last year
- An OpenMM plugin that implements the Alchemical Transfer Potential☆37Updated last year
- ☆25Updated 3 weeks ago
- Set up relative free energy calculations using a common scaffold☆22Updated 2 months ago
- ☆26Updated 10 months ago
- Gaussian Accelerated Molecular Dynamics (GaMD) is a computational method for both unconstrained enhanced sampling and free energy calcula…☆69Updated 4 months ago
- A Deep Neural Network to predict small molecule torsion energy profiles with the accuracy of QM☆34Updated last year
- A Tutorial for quasi Markov State Model(qMSM) developed by Huang Group, Dept of Chemistry at UW-Madison☆13Updated last year
- Python code for generating Boresch restraints from MD simulations☆18Updated 2 years ago
- ☆25Updated 9 months ago
- Examples of applications of pymbar to various problems in simulation and experiment☆18Updated 9 years ago
- RESP with inter- and intra-molecular constraints in Psi4.☆29Updated last year
- A Python module for carrying out GCMC insertions and deletions of water molecules in OpenMM.☆60Updated last year
- PARENT: a parallel software suite for the calculation of configurational entropy in biomolecular systems☆13Updated 2 years ago
- Martini 3 small-molecule database☆54Updated 2 months ago
- Analysis of non-covalent interactions in MD trajectories☆51Updated last year
- A python implementation of the string method with swarms of trajectories using GROMACS☆17Updated 2 years ago
- Gromacs Implementation of OPLS-AAM Force field☆13Updated 6 years ago
- ☆64Updated 10 months ago
- Several QM/MM tutorials for biological simulations adapted to CP2K. Tutorials adapted from AMBER, GMX, NAMD and CPMD softwares.☆19Updated 5 years ago
- Different run and analysis scripts as described in the research guides.☆10Updated 2 years ago
- Sample inputs and tutorial for GROMACS-2022/CP2K QMMM interface☆31Updated 3 years ago
- Bayesian Multistate Bennett Acceptance Ratio Method☆11Updated last week
- ☆31Updated 2 months ago
- Tutorial on the setup and simulation of a membrane protein with AMBER Lipid21 and PACKMOL-Memgen☆53Updated last year
- A tool for setting up free energy simulations.☆34Updated 2 years ago
- ☆29Updated 3 weeks ago