EGGTART: A tool to visualize the dynamics of biophysical transport under the inhomogeneous l-TASEP.

ABSTRACT: The totally asymmetric simple exclusion process (TASEP), which describes the stochastic dynamics of interacting particles on a lattice, has been actively studied over the past several decades and applied to model important biological transport processes. Here, we present a software package, called EGGTART (Extensive GUI gives TASEP-realization in Real Time), which quantifies and visualizes the dynamics associated with a generalized version of the TASEP with an extended particle size and heterogeneous jump rates. This computational tool is based on analytic formulas obtained from deriving and solving the hydrodynamic limit of the process. It allows an immediate quantification of the particle density, flux, and phase diagram, as a function of a few key parameters associated with the system,

SUBMITTER: Erdmann-Pham DD 

PROVIDER: S-EPMC8105713 | biostudies-literature | 2021 Apr

REPOSITORIES: biostudies-literature