The lab has developed two software suites.

Metaphore: a suite of programs to compute structural and dynamical properties of proteins from Molecular Dynamics trajectories. Metaphore reads Gromacs XTC trajectories as well as AMBER and G87 ASCII trajectories. Metaphore contains a tool to convert CHARMM DCD trajectories in XTC format. (soon to come a tutorial and documentation to learn how to use Metaphore)

Molecular Systems: a suite of Perl packages and Object Classes to manipulate biomolecular structures such as proteins and DNA. The standard IO file format for Molecular Systems is the PDB format. (soon to come a tutorial and documentation on Molecular Systems to learn how to include it in your perl programs.)