STSE statistics

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Citations per year

Citations chart

Popular tool citations

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Popular tools chart

Tool usage distribution map

Tool usage distribution map

Associated diseases

Associated diseases

STSE specifications


Unique identifier OMICS_24837
Alternative name Spatio-Temporal Simulation Environment
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages Python
Computer skills Advanced
Stability Stable
Openalea, Mayavi2, Qhull, NetworkX
Source code URL
Maintained Yes


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  • person_outline Szymon Stoma <>

Additional information

Publication for Spatio-Temporal Simulation Environment

STSE in publication

PMCID: 4171679
PMID: 23585583
DOI: 10.1093/bib/bbt021

[…] this kind of data, it mostly focuses on image-processing techniques for extracting the data rather than computational representations targeted at simulation and analysis []. one exception would be stse, a set of tools that perform spatiotemporal simulations based on microscopy images []., until recently the only attempts at visualization of processes in the context of the whole cell […]

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STSE institution(s)
Humboldt-Universitat zu Berlin, Department of Theoretical Biophysics, Berlin, Germany; Universita della Svizzera italiana (USI), Institute of Computational Science, Computational Time Series Analysis, Lugano, Switzerland
STSE funding source(s)
Supported by the Marie Curie Research Training Network Aquaglyceroporins (LSHG-CT-2006-035995-2), the German Ministry for Eduction and Research (BMBF grant for the SysMO project Translucent), the German Research Foundation (DFG grant SFB 740) and by the Swiss HP2Cinitiative “Swiss Platform for High-Performance and High-Productivity Computing”.

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