dspoel / remd-temperature-generator
Temperature generator for Replica Exchange MD simulations
☆27Updated 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..☆44Updated 4 years ago
- Tutorial to run AMBER umbrella COM restraint code and derive free energy of transfer profile for methanol through DMPC membrane☆30Updated last year
- Different run and analysis scripts as described in the research guides.☆13Updated 2 years ago
- Examples of applications of pymbar to various problems in simulation and experiment☆20Updated 10 years ago
- A Tutorial for quasi Markov State Model(qMSM) developed by Huang Group, Dept of Chemistry at UW-Madison☆15Updated last year
- Python package built on NAMD/OpenMM and OpenMMTools to perform binding free energy calculations using the TIES protocol.☆32Updated last year
- PARENT: a parallel software suite for the calculation of configurational entropy in biomolecular systems☆13Updated 3 years ago
- Gromacs Implementation of OPLS-AAM Force field☆13Updated 6 years ago
- Set up relative free energy calculations using a common scaffold☆22Updated 6 months ago
- Materials for 2023 workshop at CCPBioSim Training Week https://www.ccpbiosim.ac.uk/events/upcoming-events/eventdetail/104/-/training-week☆30Updated last year
- Density based object completion over PBC.☆27Updated 3 months ago
- OpenMM scripts for polarisable molecular dynamics with the AMOEBA force field☆24Updated 4 years ago
- A Deep Neural Network to predict small molecule torsion energy profiles with the accuracy of QM☆36Updated 2 years ago
- An OpenMM plugin that implements the Alchemical Transfer Potential☆40Updated last year
- A python implementation of the string method with swarms of trajectories using GROMACS☆18Updated 2 years ago
- ☆26Updated last year
- Python code for generating Boresch restraints from MD simulations☆19Updated 2 years ago
- Repository of the data for PLUMED Masterclass 22.3☆13Updated 8 months ago
- Random Acceleration Molecular Dynamics in GROMACS☆34Updated 7 months ago
- Several QM/MM tutorials for biological simulations adapted to CP2K. Tutorials adapted from AMBER, GMX, NAMD and CPMD softwares.☆22Updated 5 years ago
- A tutorials suite for BioSimSpace.☆24Updated 2 weeks ago
- Robust Equilibration Detection☆19Updated 3 weeks ago
- A Python module for carrying out GCMC insertions and deletions of water molecules in OpenMM.☆66Updated last year
- ☆26Updated this week
- Sample inputs and tutorial for GROMACS-2022/CP2K QMMM interface☆34Updated 3 years ago
- ☆25Updated last year
- This pipeline is executing a RE-EDS run for relative free energy calculations. It can be used for example for calculation of hydration fr…☆31Updated 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.☆46Updated 4 months ago
- ☆39Updated 7 months ago
- RESP with inter- and intra-molecular constraints in Psi4.☆30Updated last year