Title
STEPS: modeling and simulating complex reaction-diffusion systems with Python STEPS: modeling and simulating complex reaction-diffusion systems with Python
Author
Faculty/Department
Faculty of Pharmaceutical, Biomedical and Veterinary Sciences . Biomedical Sciences
Publication type
article
Publication
Subject
Human medicine
Computer. Automation
Source (journal)
Frontiers in neuroinformatics
Volume/pages
3(2009) , p. 15,1-15,8
Carrier
E
Target language
English (eng)
Full text (Publishers DOI)
Affiliation
University of Antwerp
Abstract
We describe how the use of the Python language improved the user interface of the program STEPS. STEPS is a simulation platform for modeling and stochastic simulation of coupled reaction-diffusion systems with complex 3-dimensional boundary conditions. Setting up such models is a complicated process that consists of many phases. Initial versions of STEPS relied on a static input format that did not cleanly separate these phases, limiting modelers in how they could control the simulation and becoming increasingly complex as new features and new simulation algorithms were added. We solved all of these problems by tightly integrating STEPS with Python, using SWIG to expose our existing simulation code.
Full text (open access)
https://repository.uantwerpen.be/docman/irua/dd9b94/78741.pdf
Handle