epi_final_size: Epidemic Final Size Calculation

In jameshay218/episize: Epidemic Final Size Calculator

Description

Calculates the final size of an epidemic given 2-dimensional population categorisation eg. age and immunity class. Note that this uses the final size calculation similar to that in Kucharski et al. 2014 PLoS Pathogens.

Usage

epi_final_size(C1, R0, Ns, alphas)

Arguments

C1	the non-normalised contact matrix of contact frequencies between each age class
R0	the disease specific R0 ie. beta and gamma. Note that another parameter will mediate the contact rate
Ns	the matrix of population sizes for each age or titre combination (non-normalised) (ie. rows = ages, cols = immunity classes)
alphas	a vector of values between 0 and 1 matching the number of immunity classes

Value

an NxM matrix of attack rates (ie. proportion of susceptibles becoming infected)

See Also

epi_ode_size

jameshay218/episize documentation built on May 18, 2019, 11:20 a.m.