outbreak_setup: Set up initial cases for network model

In lgs85/covidsch: School-based network model for COVID-19

Description

Set up initial cases for network model

Usage

outbreak_setup(
  net,
  df,
  num.initial.cases,
  incfn,
  delayfn,
  asym.child,
  asym.adult,
  isolation
)

Arguments

net	network in pairwise list format. Object haslemere is built into the package.
num.initial.cases	integer number of initial cases
incfn	function that samples from incubation period Weibull distribution; generated using dist_setup
delayfn	function that samples from the onset-to-hospitalisation delay Weibull distribution; generated using dist_setup
isolation	logical - do you want indiviuals to self-isolate on infection?
prop.asym	numeric proportion of cases that are sublinical (between 0 and 1)

Value

data.frame of cases in outbreak so far

Author(s)

Lewis Spurgin

Joel Hellewell

Examples

## Not run: 
# incubation period sampling function
incfn <- dist_setup(dist_shape = 2.322737,dist_scale = 6.492272)
# delay distribution sampling function
delayfn <- dist_setup(dist_shape = 1,dist_scale = 1.4)
outbreak_setup(net, num.initial.cases = 5,incfn,delayfn,prop.asym=0, isolation = TRUE)

## End(Not run)

lgs85/covidsch documentation built on May 24, 2020, 4:31 a.m.