daedalus implements the integrated epidemiological and economic model in Haw et al. (2022).
You can install the development version of daedalus from GitHub using the remotes package.
# install.packages("remotes")
remotes::install_github("j-idea/daedalus", upgrade = FALSE)The model can be run for any country or territory in the country_names
list by passing the country name to the function. This automatically
pulls country-specific demographic and economic data, which is included
in the package, into the model (see the ‘Get started’
vignette
for more details).
library(daedalus)
# run model for Canada
data <- daedalus("Canada", "influenza_1918")
# get pandemic costs as a total in million dollars
get_costs(data, "total")
#> [1] 739498.3
# disaggregate total for economic, education, and health costs
get_costs(data, "domain")
#> economic education life_years
#> 18528.338 1235.451 719734.519Users can select infection parameters from among seven epidemics caused
by directly-transmitted viral respiratory pathogens, which are stored in
the package as daedalus::infection_data, with epidemic identifiers are
stored as daedalus::epidemic_names.
Users can override default country contact data and epidemic-specific
infection arguments by passing custom classes to daedalus(); see the
package website for more details.
Users can also model the implementation of pandemic response measures:
for more on this see the documentation for the main model function
daedalus(), and the vignette on modelling interventions on the package
website.
daedalus is an R implementation of the scenario model from a project on the economics of pandemic preparedness.
Haw, David J., Giovanni Forchini, Patrick Doohan, Paula Christen, Matteo Pianella, Robert Johnson, Sumali Bajaj, et al. 2022. “Optimizing Social and Economic Activity While Containing SARS-CoV-2 Transmission Using DAEDALUS.” Nature Computational Science 2 (4): 223–33. https://doi.org/10.1038/s43588-022-00233-0.