Force of infection under a spatially explicit brancing process model
Source:R/force_of_infection.R
force_of_infection.RdThis function computes the force of infection at time t + 1 at locations 1, 2,....n given incidence (by onset) at these locations, the serial interval and the probabilities of movement of individuals during their infectious period.
Arguments
- x
A matrix of past incidence (integer). The matrix has 1 column for each location; that is, each column is interpreted as the incidence in a location.
- r_t
A matrix of reproduction numbers at times 1 through t in locations 1 through n.
- ws
flipped serial interval
- pmovement
A n_locations X n_locations matrix of the probability of movement between locations. Entry in row i, column j is the probability that a case in i will move to j during their infectious period.