A dataframe containing results used to compare cumulative influences of the
top performing alternative action for each OneHealth sectors (public health,
agriculture, and wildlife sectors) on the prevalence, persistence and
cumulative infections of SARS-CoV-2 in simulated white-tailed deer
populations. 1000 iterations (run_id) were run for captive and wild
populations of white-tailed deer, separated by a single fenceline that allows
proximity and direct contact between captive and wild deer (Complex), under
the alternative identified for public health, agriculture, and wildlife
(Alternative) that have the greatest reduction in prevalence, persistence,
and cumulative infections. Complexes include captive deer in outdoor ranch
facilities and wild deer in rural areas (Outdoor ranch and rural deer),
captive deer in outdoor ranch facilities and wild deer in suburban areas
(Outdoor ranch and suburban deer), captive deer in intensive facilities and
wild deer in rural areas (Intensive facility and rural deer), and captive
deer in intensive facilities and wild deer in suburban areas (Intensive
facility and suburban deer). Cross-sector collaboration would vaccinate and
boost captive deer (agriculture sector), require personal protective
equipment for humans interacting with deer in wild and captive settings
(public health sector), and eliminate baiting practices through legislation,
enforcement, and education (wildlife sector).
Wild and captive prevalence (meanWild and meanCaptive, respectively) are
reported as the percent of a population infected, averaged over a simulated
120-day projection (run_id), for a particular alternative applied to a
particular context. Cumulative infections reports the total proportion of the
wild and captive populations infected over the course of the 120-fall
projection (cumulativeWild and cumulativeCaptive, respectively), and can
exceed 1, indicating that all individuals were infected at least once during
the fall season, for a particular alternative applied to a particular
context. Persistence is a logical condition indicating if equilibrium
determined by SIRS ODE equations and run_steady() from the rootSolve
package predicts at least 1 in 1,000 deer infected at equilibrium for wild
and captive deer (persistWild and persistCaptive, respectively), for a
particular alternative applied to a particular context.
Format
cross_sector_results
A data frame with 9 columns and 800 rows storing the results of outbreak
simulations given a combination of best management alternatives across
OneHealth sectors (Alternative). Each row corresponds to an iteration of the
simulation, with a specific complex, alternative implemented, and random draw
of epidemiological parameters:
- run_id
Identifier of run iteration
- Complex
Combination of wild and captive scenarios interacting along a fenceline
- Alternative
Top OneHealth Management alternatives implemented
- meanWild
Mean daily prevelance in wild deer in the complex
- meanCaptive
Mean daily prevelance in captive deer in the complex
- cumulativeWild
Incidence proportion in wild deer in the complex
- cumulativeCaptive
Incidence proportion in captive deer in the complex
- persistWild
Probability of persistence in wild deer in the complex
- persistCaptive
Probability of persistence in captive deer in the complex
Source
Derived from Management_Alternatives_Systems.Rmd, and compared to
single alternative impacts stored in alternatives_across_systems.rda
Examples
if (FALSE) {
head(cross_sector_results)
}