phyloTop (version 2.1.2)

makeEpiRecord: Simulate epidemiological record

Description

Create an epidemiological record of infectors and infectees with corresponding infection and recovery times

Usage

makeEpiRecord(lambda, duration = 1, NumCases = 50)

Value

A matrix with columns "Infectee", "Infector", "InfnTime" (infection time), "RecTime" (recovery time), "DoneFlag". Suitable for using with getLabGenealogy

Arguments

lambda

a numeric vector specifying the time varying intensity lambda(t) which is passed to simNHP.fun to generate the non-homogeneous Poisson process.

duration

the fixed duration of infection (default is 1)

NumCases

the approximate number of infected cases (default is 50)

Author

Caroline Colijn

Michelle Kendall

See Also

getLabGenealogy

Examples

myepirecord <- makeEpiRecord(c(1,2,3,4), duration=2, NumCases=100)