Brownian dynamics (BD) simulations on collections of of
cores, large rigid bodies composed of many smaller
spheres, and chains, flexible assemblies of spheres that
can interact with each other and the cores.
In addition to outputting trajectories, it can also
compute the 2nd-order rate constant of the encounter of
two groups, and relative probabilities of transitions
from one conformation or binding mode to another.
Ability to use user-specified force fields.
Complete documentation, including a tutorial for new
If using BrownDye in a publication, please cite the
G. A. Huber and J. A. McCammon. Browndye: a software
package for Brownian dynamics. Computer Physics
Released Oct. 20, 2023
Browndye2 is the new version
of the software with several new features, including:
Using flexible chains
Option to use user-defined force fields
Refactoring of various utilities
Released Feb 13, 2019
Browndye 1 is the original
version of the software. It is not being developed any