Fast and principled simulations of the SIR model on temporal networks.
The Susceptible-Infectious-Recovered (SIR) model is the canonical model of epidemics of infections that make people immune upon recovery. Many of the open questions in computational epidemiology concern the underlying contact structure's impact on models like the SIR model. Temporal networks co...
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Public Library of Science (PLoS)
2021-01-01
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| Series: | PLoS ONE |
| Online Access: | https://doi.org/10.1371/journal.pone.0246961 |
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doaj-c79be87cb83241b69de4b1df142388d72021-08-06T04:30:56ZengPublic Library of Science (PLoS)PLoS ONE1932-62032021-01-01162e024696110.1371/journal.pone.0246961Fast and principled simulations of the SIR model on temporal networks.Petter HolmeThe Susceptible-Infectious-Recovered (SIR) model is the canonical model of epidemics of infections that make people immune upon recovery. Many of the open questions in computational epidemiology concern the underlying contact structure's impact on models like the SIR model. Temporal networks constitute a theoretical framework capable of encoding structures both in the networks of who could infect whom and when these contacts happen. In this article, we discuss the detailed assumptions behind such simulations-how to make them comparable with analytically tractable formulations of the SIR model, and at the same time, as realistic as possible. We also present a highly optimized, open-source code for this purpose and discuss all steps needed to make the program as fast as possible.https://doi.org/10.1371/journal.pone.0246961 |
| collection |
DOAJ |
| language |
English |
| format |
Article |
| sources |
DOAJ |
| author |
Petter Holme |
| spellingShingle |
Petter Holme Fast and principled simulations of the SIR model on temporal networks. PLoS ONE |
| author_facet |
Petter Holme |
| author_sort |
Petter Holme |
| title |
Fast and principled simulations of the SIR model on temporal networks. |
| title_short |
Fast and principled simulations of the SIR model on temporal networks. |
| title_full |
Fast and principled simulations of the SIR model on temporal networks. |
| title_fullStr |
Fast and principled simulations of the SIR model on temporal networks. |
| title_full_unstemmed |
Fast and principled simulations of the SIR model on temporal networks. |
| title_sort |
fast and principled simulations of the sir model on temporal networks. |
| publisher |
Public Library of Science (PLoS) |
| series |
PLoS ONE |
| issn |
1932-6203 |
| publishDate |
2021-01-01 |
| description |
The Susceptible-Infectious-Recovered (SIR) model is the canonical model of epidemics of infections that make people immune upon recovery. Many of the open questions in computational epidemiology concern the underlying contact structure's impact on models like the SIR model. Temporal networks constitute a theoretical framework capable of encoding structures both in the networks of who could infect whom and when these contacts happen. In this article, we discuss the detailed assumptions behind such simulations-how to make them comparable with analytically tractable formulations of the SIR model, and at the same time, as realistic as possible. We also present a highly optimized, open-source code for this purpose and discuss all steps needed to make the program as fast as possible. |
| url |
https://doi.org/10.1371/journal.pone.0246961 |
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AT petterholme fastandprincipledsimulationsofthesirmodelontemporalnetworks |
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