Members of Molecular Biophysics Stockholm contribute to the development of several software tools, largely involved in simulations or structural modeling of biomolecules.
- GROMACS: a versatile package to perform molecular dynamics, i.e. simulate the Newtonian equations of motion for systems with hundreds to millions of particles.
- Copernicus: an open-source platform that lets you automate problems that require more computing power than your single workstation provides.
- RELION: a stand-alone computer program that employs an empirical Bayesian approach to refinement of (multiple) 3D reconstructions or 2D class averages in electron cryo-microscopy (cryo-EM).