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epidemia

swMATH ID: 42859
Software Authors: James A. Scott, Axel Gandy, Swapnil Mishra, Samir Bhatt, Seth Flaxman, H. Juliette T. Unwin, Jonathan Ish-Horowicz
Description: R package epidemia: Modeling of Epidemics using Hierarchical Bayesian Models. Flexibly specify and fit Bayesian statistical models for epidemics. ’epidemia’ leverages Rs formula interface so that users can parameterize reproduction numbers and ascertainment rates in terms of predictors. Infections are propagated over time using self-exciting point processes. Multiple regions can be modeled simultaneously with multilevel models. The models and framework behind the package are described in Bhatt et al. (2021) <arXiv:2012.00394>. The design of the package has been inspired by, and has borrowed from, ’rstanarm’ (Goodrich et al., 2020) <https://mc-stan.org/rstanarm/>. ’rstan’ (Stan Development Team, 2020) <https://mc-stan.org/> is used as the back end for fitting models.
Homepage: https://cran.rstudio.com/web/packages/epidemia/index.html
Source Code: https://github.com/cran/epidemia
Dependencies: R
Keywords: R package; R; epidemia; arXiv_stat.CO; arXiv_stat.ME; Modeling of Epidemics; Hierarchical Bayesian Models; epidemiology; infectious diseases; hierarchical models; hawkes processes; bayesian
Related Software: Stan; R0; rstan; EpiEstim; Surveillance; tscount; acp; EpiModel; epinet; amei; RladyBug; rstanarm; R
Cited in: 1 Publication

Standard Articles

1 Publication describing the Software Year
Epidemia: An R Package for Semi-Mechanistic Bayesian Modelling of Infectious Diseases using Point Processes
James A. Scott, Axel Gandy, Swapnil Mishra, Samir Bhatt, Seth Flaxman, H. Juliette T. Unwin, Jonathan Ish-Horowicz
2021

Cited in 1 Field

1 Statistics (62-XX)

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