run_zika_sim: Runs a single zika simulation

In sjfox/rtZIKVrisk: Accompanies: "Real-time risk assessment for Zika in the United States"

Description

Runs a single stochastic branching process zika simulation according to the model description in "Real-time Zika Risk assessment in the United States."

Usage

run_zika_sim(params)

Arguments

params	List of named parameters for simulation, starred parameters must be present, but suggested to call zika_def_parms() and alter parms according to specific run (See examples).
infBoxes*	Integer specifying number of infectious class boxes
incBoxes*	Integer specifying number of incubation class boxes
recov_p*	Daily probability of recovery for each infectious box
incub_rate*	Daily probability of transitioning for each incubation box
prop_p*	Daily Poisson rate of transmission for each infectious individual
e_thresh*	Maximum number of cumulative infections before sim ends
prob_symp*	Probability that cases are symptomatic (haven't tested anything <1)
dis_prob_symp*	Probability of discovery for symptomatic individuals
dis_prob_asymp*	Probability of discovery for asymptomatic individuals
intro_rate*	Daily rate of new introductions according to poisson distribution

Value

Returns a dataframe that contains the daily evolution of the model compartments

Examples

run_zika_sim(zika_def_parms())
run_zika_sim(zika_def_parms(r_not=0.8, intro_rate=0.1))

sjfox/rtZIKVrisk documentation built on May 30, 2019, 12:04 a.m.