Parallelization of Gillespie algorithm based on binary words
Statistical Mechanics
2024-12-24 v1 Computational Physics
Abstract
We present an improvement of the Gillespie Exact Stochastic Simulation Algorithm, which leverages a bitwise representation of variables to perform independent simulations in parallel. We show that the subsequent gain in computational yield is significant, and it may allow to perform simulations of non-well mixed chemical systems. We illustrate this idea with simulations of Frank model, originally introduced to explain the emergence of homochirality in prebiotic systems.
Keywords
Cite
@article{arxiv.2412.16613,
title = {Parallelization of Gillespie algorithm based on binary words},
author = {David Lacoste and Michele Castellana},
journal= {arXiv preprint arXiv:2412.16613},
year = {2024}
}