Resources

Here you can find a list of tools that we use, download links and stuff of general interest.

Software

MasterMSM: code for building master equation (Markov state) models of molecular kinetics.

Prefur: algorithms for the prediction of folding and unfolding rates for single domain, two-state proteins.

Molecular Dynamics Packages

Gromacs

Visualization

VMD

Chimera

Toolbox

These are just some notes on the types of tools that I use on a daily basis.