superspreading-package: superspreading: Understand Individual-Level Variation in...

In superspreading: Understand Individual-Level Variation in Infectious Disease Transmission

superspreading: Understand Individual-Level Variation in Infectious Disease Transmission

Description

Estimate and understand individual-level variation in transmission. Implements density and cumulative compound Poisson discrete distribution functions ('Kremer et al.' (2021) \Sexpr[results=rd]{tools:::Rd_expr_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) \Sexpr[results=rd]{tools:::Rd_expr_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) \Sexpr[results=rd]{tools:::Rd_expr_doi("10.1038/nature04153")}).

Author(s)

Maintainer: Joshua W. Lambert [e-mail] (ORCID) [copyright holder]

Authors:

• Adam Kucharski [e-mail] (ORCID) [copyright holder]

• Dillon C. Adam [e-mail] (ORCID)

Other contributors:

• Sebastian Funk [e-mail] (ORCID) (.chain_sim uses code from bpmodels::chain_sim) [contributor, copyright holder]

• Pratik Gupte [e-mail] (ORCID) [reviewer]

• Hugo Gruson [e-mail] (ORCID) [reviewer]

• James M. Azam [e-mail] (ORCID) [reviewer, contributor]

• Chris Hartgerink [e-mail] (ORCID) [reviewer]

See Also

Useful links:

• https://github.com/epiverse-trace/superspreading

• https://epiverse-trace.github.io/superspreading/

• Report bugs at https://github.com/epiverse-trace/superspreading/issues

superspreading documentation built on April 4, 2025, 3:18 a.m.