In this note, I will accumulate some VMD tips I find useful. The main purpose of this note is for self convenience but I hope it can be useful for anyone who wander on this page

Writing a overdamped Brownian Dynamics fix for LAMMPS. LAMMPS is a very powerful Molecular Dynamics simulation software I use in my daily research. In our research group, we mainly run Langevin Dynamics (LD) or Brownian Dynamics (BD) simulation. However, for some reason, LAMMPS doesn’t provide a …

Pivot algorithm is best Monte Carlo algorithm known so far used for generating canonical ensemble of self-avoiding random walks (fixed number of steps). Originally it is for the random walk on a lattice, but it also can be modified for continuous random walk. Recently I encountered a problem wher…