python-based geometry preparation and simulation visualization toolkits for steps

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ID: 239831
2014
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Abstract
STEPS is a stochastic reaction-diffusion simulation engine that implements a spatial extension of Gillespie’s Stochastic Simulation Algorithm (SSA) in complex tetrahedral geometries. An extensive Python-based interface is provided to STEPS so that it can interact with the large number of scientific packages in Python. However, a gap existed between the interfaces of these packages and the STEPS user interface, where supporting toolkits could reduce the amount of scripting required for research projects. This paper introduces two new supporting toolkits that support geometry preparation and visualization for STEPS simulations.
Reference Key
echen2014frontierspython-based Use this key to autocite in the manuscript while using SciMatic Manuscript Manager or Thesis Manager
Authors ;Weiliang eChen;Erik eDe Schutter
Journal Nucleic Acids Research
Year 2014
DOI
10.3389/fninf.2014.00037
URL
http://journal.frontiersin.org/Journal/10.3389/fninf.2014.00037/full
Keywords
Python steps neuropsychiatry biological psychiatry simulation visualizationneurosciences

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