calc.prop.inf: Calculate proportion infected in each district

In gilesjohnr/hmob: Tools for analyzing human mobility data

Description

This function takes the output from a TSIR simulation and calculates the mean proportion infected in each district.

Usage

calc.prop.inf(x, N)

Arguments

x	matrix of total infected for all districts in simulation
N	vector of population size of each district

Value

a dataframe

Author(s)

John Giles

See Also

Other simulation: calc.hpd(), calc.prop.remain(), calc.timing.magnitude(), calc.wait.time(), decay.func(), get.age.beta(), get.beta.params(), sim.TSIR.full(), sim.TSIR(), sim.combine.dual(), sim.combine(), sim.gravity.duration(), sim.gravity(), sim.lambda(), sim.pi(), sim.rho(), sim.tau()

Examples

load("./output/TSIR_sim_influenza_high.Rdata") # sim
load('./data/N_pop.rdata')                     # N.pop

# Get only relevant districts
districts <- colnames(sim$B$tot.inf)
N <- N[which(N$ID %in% districts), 'N']

# Calculate mean proportion infected in each district
prop.inf.basic <- calc.prop.inf(sim$B$tot.inf, N=N)
prop.inf.duration <- calc.prop.inf(sim$R$tot.inf, N=N)

gilesjohnr/hmob documentation built on Aug. 8, 2020, 1:26 a.m.