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Responsible modelling : unit testing for infectious disease epidemiology
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Lucas, Tim C. D., Pollington, Timothy M., Davis, Emma L. and Hollingsworth, T. Déirdre (2020) Responsible modelling : unit testing for infectious disease epidemiology. Epidemics, 33 . 100425. doi:10.1016/j.epidem.2020.100425 ISSN 1755-4365.
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Official URL: https://doi.org/10.1016/j.epidem.2020.100425
Abstract
Infectious disease epidemiology is increasingly reliant on large-scale computation and inference. Models have guided health policy for epidemics including COVID-19 and Ebola and endemic diseases including malaria and tuberculosis. Yet a coding bug may bias results, yielding incorrect conclusions and actions causing avoidable harm. We are ethically obliged to make our code as free of error as possible. Unit testing is a coding method to avoid such bugs, but it is rarely used in epidemiology. We demonstrate how unit testing can handle the particular quirks of infectious disease models and aim to increase uptake of this methodology in our field.
| Item Type: | Journal Article | |||||||||||||||
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| Subjects: | Q Science > QH Natural history > QH301 Biology R Medicine > RA Public aspects of medicine |
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| Divisions: | Faculty of Science, Engineering and Medicine > Research Centres > Centre for Complexity Science Faculty of Science, Engineering and Medicine > Science > Mathematics |
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| Library of Congress Subject Headings (LCSH): | Communicable diseases -- Epidemiology -- Mathematical models, Epidemiology -- Mathematical models, Communicable diseases -- Epidemiology, Communicable diseases -- Data processing, Computational complexity | |||||||||||||||
| Journal or Publication Title: | Epidemics | |||||||||||||||
| Publisher: | Elsevier BV | |||||||||||||||
| ISSN: | 1755-4365 | |||||||||||||||
| Official Date: | December 2020 | |||||||||||||||
| Dates: |
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| Volume: | 33 | |||||||||||||||
| Article Number: | 100425 | |||||||||||||||
| DOI: | 10.1016/j.epidem.2020.100425 | |||||||||||||||
| Status: | Peer Reviewed | |||||||||||||||
| Publication Status: | Published | |||||||||||||||
| Access rights to Published version: | Open Access (Creative Commons) | |||||||||||||||
| Date of first compliant deposit: | 25 November 2020 | |||||||||||||||
| Date of first compliant Open Access: | 22 December 2020 | |||||||||||||||
| Funder: | Bill and Melinda Gates Foundation, Engineering & Physical Sciences Research Council, Medical Research Council, University of Warwick | |||||||||||||||
| RIOXX Funder/Project Grant: |
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