Releases · epicity-cz/model-m (original) (raw)

Model M v1.0

Epicity – Model M

Model M is an agent-based epidemic model for COVID-19 computational experiments on realistic multi-graph social
networks. It allows to simulate projections of main epidemic indicators with respect to various interventions. These
include lockdowns, closures of different contact layers (leisure, schools, etc.), social distancing, testing and
quarantine, contact tracing, and vaccination.

Authors

click to expand

Luděk Berec, The Czech Academy of Sciences, Institute of Information Theory and Automation, Centre for Mathematical Biology, Institute of Mathematics, Faculty of Science, University of South Bohemia and Czech Academy of Sciences, Biology Centre, Institute of Entomology 3

Tomáš Diviák, The Czech Academy of Sciences, Institute of Information Theory and Automation, Department of Criminology and Mitchell Centre for Social Network Analysis, School of Social Sciences, University of Manchester
3

Aleš Kuběna, The Czech Academy of Sciences, Institute of Information Theory and Automation 3

René Levinský, CERGE-EI 3

Roman Neruda, The Czech Academy of Sciences, Institute of Computer Science 3

Gabriela Suchopárová, The Czech Academy of Sciences, Institute of Computer Science 3

Josef Šlerka, The Czech Academy of Sciences, Institute of Information Theory and Automation, New Media Studies, Faculty of Arts, Charles University 3

Martin Šmíd, The Czech Academy of Sciences, Institute of Information Theory and Automation 3

Jan Trnka, The Czech Academy of Sciences, Institute of Information Theory and Automation, Department of Biochemistry, Cell and Molecular Biology, Third Faculty of Medicine, Charles University 3

Vít Tuček, The Czech Academy of Sciences, Institute of Computer Science, Department of Mathematics, University of Zagreb 3

Petra Vidnerová, The Czech Academy of Sciences, Institute of Computer Science 3

Karel Vrbenský, The Czech Academy of Sciences, Institute of Information Theory and Automation
3

Milan Zajíček, The Czech Academy of Sciences, Institute of Information Theory and Automation
3

František Zapletal, The Czech Academy of Sciences, Institute of Information Theory and Automation

3 Centre for Modelling of Biological and Social Processes

Acknowledgement

We would like to thank the company Seznam.cz, a.s., division Firmy.cz who provided us with the source data for model
creation (points of interests) free of charge.

The work has been supported by the "City for People, Not for Virus" project No. TL04000282 of the Technology Agency of
the Czech Republic.

How to cite

If you would like to refer to this software in a publication, please cite the following paper preprint on medrXiv:

Model-M: An agent-based epidemic model of a middle-sized municipality

Ludek Berec, Tomas Diviak, Ales Kubena, Rene Levinsky, Roman Neruda, Gabriela Suchoparova, Josef Slerka, Martin Smid,
Jan Trnka, Vit Tucek, Petra Vidnerova, Milan Zajicek, Frantisek Zapletal

medRxiv 2021.05.13.21257139; doi: https://doi.org/10.1101/2021.05.13.21257139

@article {Berec2021.05.13.21257139, author = {Berec, Ludek and Diviak, Tomas and Kubena, Ales and Levinsky, Rene and Neruda, Roman and Suchoparova, Gabriela and Slerka, Josef and Smid, Martin and Trnka, Jan and Tucek, Vit and Vidnerova, Petra and Zajicek, Milan and Zapletal, Frantisek}, title = {Model-M: An agent-based epidemic model of a middle-sized municipality}, elocation-id = {2021.05.13.21257139}, year = {2021}, doi = {10.1101/2021.05.13.21257139}, publisher = {Cold Spring Harbor Laboratory Press}, URL = {https://www.medrxiv.org/content/10.1101/2021.05.13.21257139v1}, eprint = {https://www.medrxiv.org/content/10.1101/2021.05.13.21257139v1.full.pdf}, journal = {medRxiv} }

Model M v0.3

Model M

Covid-19 epidemic model on realistic social network

Authors:

Luděk Berec, Centre for Modelling of Biological and Social Processes, Centre for Mathematical Biology, Institute of Mathematics, Faculty of Science, University of South Bohemia and Czech Academy of Sciences, Biology Centre, Institute of Entomology
Tomáš Diviák, Centre for Modelling of Biological and Social Processes and Department of Criminology and Mitchell Centre for Social Network Analysis, School of Social Sciences, University of Manchester
Aleš Kuběna, Centre for Modelling of Biological and Social Processes and The Czech Academy of Sciences, Institute of Information Theory and Automation
René Levinský, Centre for Modelling of Biological and Social Processes and CERGE-EI
Roman Neruda, Centre for Modelling of Biological and Social Processes and The Czech Academy of Sciences, Institute of Computer Science
Gabriela Suchopárová, Centre for Modelling of Biological and Social Processes and The Czech Academy of Sciences, Institute of Computer Science
Josef Šlerka, Centre for Modelling of Biological and Social Processes and New Media Studies, Faculty of Arts, Charles University
Martin Šmíd, Centre for Modelling of Biological and Social Processes and The Czech Academy of Sciences, Institute of Information Theory and Automation
Jan Trnka, Centre for Modelling of Biological and Social Processes and Department of Biochemistry, Cell and Molecular Biology, Third Faculty of Medicine, Charles University
Vít Tuček, Centre for Modelling of Biological and Social Processes and Department of Mathematics, University of Zagreb
Petra Vidnerová, Centre for Modelling of Biological and Social Processes and The Czech Academy of Sciences, Institute of Computer Science
Karel Vrbenský, Centre for Modelling of Biological and Social Processes and The Czech Academy of Sciences, Institute of Information Theory and Automation
Milan Zajíček, Centre for Modelling of Biological and Social Processes and The Czech Academy of Sciences, Institute of Information Theory and Automation
František Zapletal, The Czech Academy of Sciences, Institute of Information Theory and Automation

Acknowledgement:

The work has been supported by the "City for People, Not for Virus" project No. TL04000282 of the Technology Agency of the Czech Republic.

How to cite:

If you would like to refer to this software in a publication, please cite the following paper preprint on medrXiv:

Model-M: An agent-based epidemic model of a middle-sized municipality
Ludek Berec, Tomas Diviak, Ales Kubena, Rene Levinsky, Roman Neruda, Gabriela Suchoparova, Josef Slerka,
Martin Smid, Jan Trnka, Vit Tucek, Petra Vidnerova, Milan Zajicek, Frantisek Zapletal
medRxiv 2021.05.13.21257139; doi: https://doi.org/10.1101/2021.05.13.21257139

@article {Berec2021.05.13.21257139,
    author = {Berec, Ludek and Diviak, Tomas and Kubena, Ales and Levinsky, Rene and Neruda, Roman 
  and Suchoparova, Gabriela and Slerka, Josef and Smid,  Martin and Trnka, Jan and Tucek, Vit 
  and Vidnerova, Petra and Zajicek, Milan and Zapletal, Frantisek},
    title = {Model-M: An agent-based epidemic model of a middle-sized municipality},
    elocation-id = {2021.05.13.21257139},
    year = {2021},
    doi = {10.1101/2021.05.13.21257139},
    publisher = {Cold Spring Harbor Laboratory Press},
    URL = {https://www.medrxiv.org/content/10.1101/2021.05.13.21257139v1},
    eprint = {https://www.medrxiv.org/content/10.1101/2021.05.13.21257139v1.full.pdf},
    journal = {medRxiv}
}

Model M v0.2-schools

Covid-19 epidemic model on realistic social network

Authors:

Luděk Berec, Centre for Modelling of Biological and Social Processes, Centre for Mathematical Biology, Institute of Mathematics, Faculty of Science, University of South Bohemia and Czech Academy of Sciences, Biology Centre, Institute of Entomology
Cyril Brom*, Faculty of Mathematics and Physics, Charles University
Tomáš Diviák*, Centre for Modelling of Biological and Social Processes and Department of Criminology and Mitchell Centre for Social Network Analysis, School of Social Sciences, University of Manchester
Jakub Drbohlav*, Centre for Modelling of Biological and Social Processes
Václav Korbel*, CERGE-EI
Aleš Kuběna, Centre for Modelling of Biological and Social Processes and The Czech Academy of Sciences, Institute of Information Theory and Automation
René Levinský*, Centre for Modelling of Biological and Social Processes and CERGE-EI
Roman Neruda*, Centre for Modelling of Biological and Social Processes and The Czech Academy of Sciences, Institute of Computer Science
Gabriela Suchopárová*, Centre for Modelling of Biological and Social Processes and The Czech Academy of Sciences, Institute of Computer Science
Josef Šlerka*, Centre for Modelling of Biological and Social Processes and New Media Studies, Faculty of Arts, Charles University
Martin Šmíd*, Centre for Modelling of Biological and Social Processes and The Czech Academy of Sciences, Institute of Information Theory and Automation
Jan Trnka*, Centre for Modelling of Biological and Social Processes and Department of Biochemistry, Cell and Molecular Biology, Third Faculty of Medicine, Charles University
Vít Tuček, Centre for Modelling of Biological and Social Processes and Department of Mathematics, University of Zagreb
Petra Vidnerová*, Centre for Modelling of Biological and Social Processes and The Czech Academy of Sciences, Institute of Computer Science
Karel Vrbenský, Centre for Modelling of Biological and Social Processes and The Czech Academy of Sciences, Institute of Information Theory and Automation
Milan Zajíček, Centre for Modelling of Biological and Social Processes and The Czech Academy of Sciences, Institute of Information Theory and Automation
František Zapletal, The Czech Academy of Sciences, Institute of Information Theory and Automation

* authors that contributed to the schools release and paper.

Acknowledgement:

This work was supported by the European Regional Development Fund-Project "Creativity and Adaptability as Conditions of the Success of Europe in an Interrelated World" (No. CZ.02.1.01/0.0/0.0/16019/0000734) and by the "City for People, Not for Virus" project No. TL04000282 of the Technology Agency of the Czech Republic. We would like to thank Eva Blechová for insightful suggestions. We highly appreciate the help of Helena Patáková with data collection and to Jan Žák with data collection and anonymization.

Model M v0.1

Model M

Covid-19 epidemic model on realistic social network

Authors:

Acknowledgement:

The work has been supported by the "City for People, Not for Virus" project No. TL04000282 of the Technology Agency of the Czech Republic.

How to cite:

If you would like to refer to this software in a publication, please cite the following paper preprint on medrXiv:
Model-M: An agent-based epidemic model of a middle-sized municipality

Ludek Berec, Tomas Diviak, Ales Kubena, Rene Levinsky, Roman Neruda, Gabriela Suchoparova, Josef Slerka,
Martin Smid, Jan Trnka, Vit Tucek, Petra Vidnerova, Milan Zajicek, Frantisek Zapletal

medRxiv 2021.05.13.21257139; doi: https://doi.org/10.1101/2021.05.13.21257139

@article {Berec2021.05.13.21257139,
    author = {Berec, Ludek and Diviak, Tomas and Kubena, Ales and Levinsky, Rene and Neruda, Roman 
  and Suchoparova, Gabriela and Slerka, Josef and Smid,  Martin and Trnka, Jan and Tucek, Vit 
  and Vidnerova, Petra and Zajicek, Milan and Zapletal, Frantisek},
    title = {Model-M: An agent-based epidemic model of a middle-sized municipality},
    elocation-id = {2021.05.13.21257139},
    year = {2021},
    doi = {10.1101/2021.05.13.21257139},
    publisher = {Cold Spring Harbor Laboratory Press},
    URL = {https://www.medrxiv.org/content/10.1101/2021.05.13.21257139v1},
    eprint = {https://www.medrxiv.org/content/10.1101/2021.05.13.21257139v1.full.pdf},
    journal = {medRxiv}
}