get_vaccine_ab_titre_parameters: Get vaccine efficacy and Ab titre parameters

In mrc-ide/safir: Individual-Based Model of COVID Transmission

Get vaccine efficacy and Ab titre parameters

Description

Get parameters for vaccine efficacy and antibody titre decay rate.

Usage

get_vaccine_ab_titre_parameters(
  vaccine,
  max_dose = 2,
  correlated = FALSE,
  hl_s = 108,
  hl_l = 3650,
  period_s = 250,
  t_period_l = 365,
  ab_50 = 0.2,
  ab_50_severe = 0.03,
  std10 = 0.44,
  k = 2.94,
  nt_transmission_factor = 12,
  nt_efficacy_transmission = FALSE,
  max_ab = 8,
  mu_ab_list = data.frame(name = c("Pfizer", "AstraZeneca", "Sinovac", "Moderna"),
    mu_ab_d1 = c(13/94, 1/59, 28/164, ((185 + 273)/2)/321), mu_ab_d2 = c(223/94, 32/59,
    28/164, 654/158))
)

Arguments

vaccine	which vaccine? should be one of: "Pfizer", "AstraZeneca", "Sinovac", "Moderna" (controls the mean titre associated with each dose)
max_dose	maximum number of doses
correlated	are doses correlated?
hl_s	Half life of antibody decay - short
hl_l	Half life of antibody decay - long
period_s	length of the initial decay rate (shortest half-life)
t_period_l	Time point at which to have switched to longest half-life
ab_50	titre relative to convalescent required to provide 50% protection from infection, on linear scale
ab_50_severe	titre relative to convalescent required to provide 50% protection from severe disease, on linear scale
std10	Pooled standard deviation of antibody level on log10 data
k	shape parameter of efficacy curve
nt_transmission_factor	used by vaccine_efficacy_transmission to compute the effect of antibody titre on onward transmission
nt_efficacy_transmission	a logical variable, specify if antibody titre should affect onward transmission
max_ab	maximum allowable antibody titre draw (on natural log scale)
mu_ab_list	a data.frame

mrc-ide/safir documentation built on Aug. 2, 2022, 10:47 a.m.