NAMD is a parallel molecular dynamics code for large biomolecular systems. NAMD is free with source code.
VMD is a molecular visualization program for displaying, animating, and analyzing large biomolecular systems using 3-D graphics and built-in scripting.
Code produced for the course PHYS 519 - Advanced Biophysics
Quantitative analysis of cryo-electron tomography data in the context of podosomes.