setup_infection_histories_total: Initial infection history prior on total

In seroanalytics/serosolver: Inference Framework for Serological Data

Initial infection history prior on total

Description

Sets up an initial random infection history, where start is sampled from a prior on the total number of infections across all individuals and years

Usage

setup_infection_histories_total(
  titre_dat,
  strain_isolation_times,
  alpha = 1,
  beta = 1
)

Arguments

titre_dat	the matrix of titres data with columns for individual, sample, and titre
strain_isolation_times	vector of real times for all strains
alpha	alpha parameter for beta distribution to sample from
beta	beta parameter for beta distribution to sample from

Value

an infection history matrix

See Also

Other setup_infection_histories: setup_infection_histories_old(), setup_infection_histories_titre(), setup_infection_histories()

Examples

data(example_titre_dat)
data(example_antigenic_map)
start_inf <- setup_infection_histories_total(example_titre_dat, example_antigenic_map$inf_times, 2,10)

seroanalytics/serosolver documentation built on April 24, 2023, 9:52 a.m.