These tutorials are designed as introductory material into using the GROMACS simulation package. GROMACS is free, open-source software, and has consistently been one of the …

All the GROMACS tutorials available from this site are freely licensed under the CC-BY-4.0 You are welcome to use them in any way, download them for personal use or use in your own …

Unlock the power of molecular dynamics with this step-by-step GROMACS tutorial series. Whether you're a beginner or looking to sharpen your skills, this play...

The typical output files of gmx mdrun are the trajectory file (trr file), a logfile (log file), and perhaps a checkpoint file (cpt file). Tutorial material ¶ There are several tutorials available that cover …

Oct 8, 2024 · This article focuses on using GROMACS to simulate a simple protein, providing a step-by-step guide for beginners. In this tutorial, we will simulate the molecular dynamics of …

Overview: The tutorial will take you through a complete protocol for setting up, simulating, and analysing the results from a molecular dynamics simulation of a small protein using GROMACS.

GROMACS Tutorial Lysozyme in Water This example will guide a new user through the process of setting up a simulation system containing a protein (lysozyme) in a box of water, with ions. …

On the GROMACS tutorial page you find a collection of training resource and free online GROMACS tutorials, provided as interactive Jupyter notebooks.

GROMACS is a versatile package for performing molecular dynamics simulations and energy minimization. This tutorial will guide you through the basic usage of GROMACS.

Performing a simple molecular dynamics. Simulating a proteinin an electrolyte . Stretching a polymerin water . GitHub. Mastodon. Youtube. Email. All the scripts are openly available on …