Initialise_2b: Initialise the parameters and infection times.

In BenjamenSimon/EpidemicR: Stochastic modelling and inference for epidemics.

Description

This function initialises an epidemic (checking it is valid) which has two infection rates.

Usage

Initialise_2b(N = N, rem.times = rem.times, beta1.true = NA,
  beta2.true = NA, p.true = NA, dist.true = NA, inf.times = NA,
  d.lower = d.lower, d.upper = d.upper, dist.mat, reparam = FALSE)

Arguments

N	The size of the total population.
rem.times	A vector of the removal times.
beta1.true	The true value of beta1, will fix beta1 if given, defaults to NA.
beta2.true	The true value of beta2, will fix beta2 if given, defaults to NA.
p.true	The true value of p, will fix p if given, defaults to NA.
dist.true	The true value of d, will fix d if given, defaults to NA.
inf.times	A vector of the infection times.
d.lower	Lower bound on the proposal of d.
d.upper	Upper bound on the proposal of d.
dist.mat	An NxN distance matrix.
reparam	TRUE/FALSE statement of whether we are using the reparameterisation beta2 = p * beta1 (p in (0,1)).

Value

Returns a list with values (beta1.cur, beta2.cur, p.cur, dist.cur, inf.times).

Examples

Initilise_2b(beta1.true = 0.004, dist.mat = distance.mat, reparam = T)

BenjamenSimon/EpidemicR documentation built on March 23, 2020, 11:03 p.m.