infection.count {SimVitD}

Generate whether a participant contracted a infection at exposure times.

Description

Generates probabilities of developing infection, the relative risk and whether a participant becomes infected or not at exposure times.

Usage

  infection.count( expos, baseline = 0.03, RR = 3, holding.time = 2, lohi.vit = c(10,70) )

Arguments

expos

An object of class exposure.levels.

baseline

Numeric, baseline prevalence of developing infection at any exposure time. Probability of developing infection when a participant has maximum (fully replete) vitamin D levels.

RR

Numeric, the relative risk of the study. The difference between becoming infected at highest and lowest vitamin D levels.

holding.time

Numeric, the mean number of weeks for after becoming infected when the participant can not become re-infected. Times are simulated independently from an exponential distribution with this mean.

lohi.vit

A vector of length 2 giving the level at which a participant is considered to have insufficient and sufficient vitamin D status levels.

Value

infection.count returns an object of class infection.count that is a list. The list has the following slots.

baseline

The baseline prevalence of disease.

RR

The relative risk of the study.

inflection

The inflection points of the relative risk curve.

probs

Matrix, the probability of developing infection at each exposure time for each participant.

relativerisk

Matrix, the relative risk of infection at each exposure time for each participant.

infection

Matrix, 1 if participant was infected at the corresponding exposure time, 0 if participant was not infected at exposure time.

count

Number of infections for each participant over the course of the study.

mean

The mean number of infections for the group over the course of the study.

Author(s)

Rebecca Mangan and Jason Wyse