Create a list of delay distributions to run the ringbp model

Usage

delay_opts(incubation_period, onset_to_isolation, latent_period = 0)

Arguments

incubation_period

a function: a random number generating function that samples from incubation period distribution, the function accepts a single integer argument specifying the number of times to sample the incubation period (i.e. length of the function output).

onset_to_isolation

a function: a random number generating function that accepts a single integer argument specifying the length of the function output.

latent_period

a non-negative numeric scalar: the minimum time between an individual being exposed and becoming infectious. It is a population-wide parameter, with no variability between individuals. It sets the minimum generation time in the model. Default is 0 (i.e. an individual becomes immediately infectious after being infected).

If latent_period is positive then generation times are sampled conditional on gt >= latent_period (i.e. left-truncated at latent_period). This may reduce the realised proportion of presymptomatic transmission, depending on the incubation_period distribution and presymptomatic_transmission (in event_prob_opts()).

Value

A list with class <ringbp_delay_opts>.

Examples

delay_opts(
  incubation_period = \(n) rweibull(n = n, shape = 2.32, scale = 6.49),
  onset_to_isolation = \(n) rweibull(n = n, shape = 1.65, scale = 4.28)
)
#> $incubation_period
#> function (n) 
#> rweibull(n = n, shape = 2.32, scale = 6.49)
#> <environment: 0x564fbae1adf0>
#> 
#> $onset_to_isolation
#> function (n) 
#> rweibull(n = n, shape = 1.65, scale = 4.28)
#> <environment: 0x564fbae1adf0>
#> 
#> $latent_period
#> [1] 0
#> 
#> attr(,"class")
#> [1] "ringbp_delay_opts"