dspoel / remd-temperature-generator
Temperature generator for Replica Exchange MD simulations
☆28Updated 2 years ago
Alternatives and similar repositories for remd-temperature-generator:
Users that are interested in remd-temperature-generator are comparing it to the libraries listed below
- Tutorials of few enhanced sampling methods along with bash script to run the method in a single shot..☆45Updated 4 years ago
- Tutorial to run AMBER umbrella COM restraint code and derive free energy of transfer profile for methanol through DMPC membrane☆32Updated last year
- A python implementation of the string method with swarms of trajectories using GROMACS☆18Updated 2 years ago
- Different run and analysis scripts as described in the research guides.☆13Updated 2 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
- Python package built on NAMD/OpenMM and OpenMMTools to perform binding free energy calculations using the TIES protocol.☆32Updated last year
- A tutorials suite for BioSimSpace.☆25Updated 3 weeks ago
- A Tutorial for quasi Markov State Model(qMSM) developed by Huang Group, Dept of Chemistry at UW-Madison☆15Updated last year
- Examples of applications of pymbar to various problems in simulation and experiment☆21Updated 10 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
- A Deep Neural Network to predict small molecule torsion energy profiles with the accuracy of QM☆39Updated 2 years ago
- An OpenMM plugin that implements the Alchemical Transfer Potential☆40Updated 2 years ago
- PARENT: a parallel software suite for the calculation of configurational entropy in biomolecular systems☆15Updated 3 years ago
- ☆35Updated 8 months ago
- Python code for generating Boresch restraints from MD simulations☆20Updated 2 years ago
- Set of tools for input preparation for conserved water search from MD trajectories (gromacs, amber) and their analysis☆17Updated 6 months ago
- Random Acceleration Molecular Dynamics in GROMACS☆36Updated 9 months ago
- ☆39Updated 9 months ago
- Repository of the data for PLUMED Masterclass 22.3☆13Updated 9 months ago
- OpenMM scripts for polarisable molecular dynamics with the AMOEBA force field☆24Updated 5 years ago
- Set up relative free energy calculations using a common scaffold☆22Updated 2 weeks ago
- ☆26Updated last year
- ☆27Updated last month
- ☆11Updated 10 months ago
- Density based object completion over PBC.☆29Updated 4 months ago
- Sample inputs and tutorial for GROMACS-2022/CP2K QMMM interface☆35Updated 3 years ago
- Gromacs Implementation of OPLS-AAM Force field☆13Updated 6 years ago
- Martini 3 small-molecule database☆59Updated 8 months ago
- Automatic Mutual Information Noise Omission☆15Updated 6 months ago
- MM and QM/MM setup for a metalloprotein using GROMACS, Chemshell and ORCA (Using the CHARMM forcefield (both in GROMACS and with Chemshe…☆22Updated 10 months ago