Deriving appropriate boundary conditions, and accelerating position-jump simulations, of diffusion using non-local jumping

P R Taylor, R E Baker, C A Yates

Research output: Contribution to journalArticle

7 Citations (Scopus)
120 Downloads (Pure)

Abstract

In this paper we explore lattice-based position-jump models of diffusion, and the implications of introducing non-local jumping; particles can jump to a range of nearby boxes rather than only to their nearest neighbours. We begin by deriving conditions for equivalence with traditional local jumping models in the continuum limit. We then generalize a previously postulated implementation of the Robin boundary condition for a non-local process of arbitrary maximum jump length, and present a novel implementation of flux boundary conditions, again generalized for a non-local process of arbitrary maximum jump length. In both these cases we validate our results using stochastic simulation. We then proceed to consider two variations on the basic diffusion model: a hybrid local/non-local scheme suitable for models involving sharp concentration gradients, and the implementation of biased jumping. In all cases we show that non-local jumping can deliver substantial time savings for stochastic simulations.
Original languageEnglish
Article number016006
Number of pages22
JournalPhysical Biology
Volume12
Issue number1
DOIs
Publication statusPublished - 16 Dec 2014

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