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superspreading: Understand Individual-Level Variation in Infectious Disease Transmission
Estimate and understand individual-level variation in transmission. Implements density and cumulative compound Poisson discrete distribution functions ('Kremer et al.' (2021) <doi:10.1038/s41598-021-93578-x>), as well as functions to calculate infectious disease outbreak statistics given epidemiological parameters on individual-level transmission; including the probability of an outbreak becoming an epidemic/extinct ('Kucharski et al.' (2020) <doi:10.1016/S1473-3099(20)30144-4>), or the cluster size statistics, e.g. what proportion of cases cause X\% of transmission ('Lloyd-Smith et al.' (2005) <doi:10.1038/nature04153>).
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Package details |
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| Author | Joshua W. Lambert [aut, cre, cph] (<https://orcid.org/0000-0001-5218-3046>), Adam Kucharski [aut, cph] (<https://orcid.org/0000-0001-8814-9421>), Dillon C. Adam [aut] (<https://orcid.org/0000-0002-7485-9905>), Sebastian Funk [ctb, cph] (<https://orcid.org/0000-0002-2842-3406>, .chain_sim uses code from bpmodels::chain_sim), Pratik Gupte [rev] (<https://orcid.org/0000-0001-5294-7819>), Hugo Gruson [rev] (<https://orcid.org/0000-0002-4094-1476>), James M. Azam [rev, ctb] (<https://orcid.org/0000-0001-5782-7330>), Chris Hartgerink [rev] (<https://orcid.org/0000-0003-1050-6809>) |
| Maintainer | Joshua W. Lambert <joshua.lambert@lshtm.ac.uk> |
| License | MIT + file LICENSE |
| Version | 0.3.0 |
| URL | https://github.com/epiverse-trace/superspreading https://epiverse-trace.github.io/superspreading/ |
| Package repository | View on CRAN |
| Installation |
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