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Calculate the Steady-State Joint Distribution for a Population

Source: R/calc_dist.R
cs_dist.Rd

cs_dist() calculates the discrete joint distribution of vaccination, infection, symptoms, tests, and detections in a population.

Usage

cs_dist(
  vac = list(p_comm = 0.5, p_org = 0.5, eff = 0.5),
  inf = list(p_incid = 0.005, t_symp = 5, t_presymp = 5),
  symp = list(p_inf_vac = 0.5, p_inf_unvac = 0.5, p_uninf = 0),
  test = list(p_symp = 1, p_asymp_vac = 0, p_asymp_unvac = 1/7),
  detect = list(sens = 0.85, spec = 1)
)

Arguments

vac

[list(3)] A named list containing vaccination parameters:

p_comm [numeric(1)]

Proportion vaccinated in the community

p_org [numeric(1)]

Proportion vaccinated in the organization of interest

eff [numeric(1)]

Vaccine efficacy

inf

[list(3)] A named list containing infection parameters:

p_incid [numeric(1)]

Proportion of community newly infected each day

t_symp [numeric(1)]

Duration of symptomatic period

t_presymp [numeric(1)]

Duration of presymptomatic period

symp

[list(3)] A named lust containing symptom parameters:

p_inf_vac [numeric(1)]

Proportion of vaccinated infections who are symptomatic

p_inf_unvac [numeric(1)]

Proportion of unvaccinated infections who are symptomatic

p_uninf [numeric(1)]

Proportion of uninfected people who are symptomatic

test

[list(3)] A named list containing testing parameters:

p_symp [numeric(1)]

Probability of being tested if symptomatic

p_asymp_vac [numeric(1)]

Probability of being tested if asymptomatic and vaccinated

p_asymp_unvac [numeric(1)]

Probability of being tested if asymptomatic and unvaccinated

detect

[list(2)] A named list containing detection parameters:

sens [numeric(1)]

Test sensitivity

spec [numeric(1)]

Test specificity

Value

A data.table