Skip to contents

Class "SimInf_events"

Source: R/classes.R
SimInf_events-class.Rd

Class to hold data for scheduled events to modify the discrete state of individuals in a node at a pre-defined time t.

Slots

E

Each row corresponds to one compartment in the model. The non-zero entries in a column indicates the compartments to include in an event. For the exit, internal transfer and external transfer events, a non-zero entry indicate the compartments to sample individuals from. For the enter event, all individuals enter first non-zero compartment. E is sparse matrix of class dgCMatrix.

N

Determines how individuals in internal transfer and external transfer events are shifted to enter another compartment. Each row corresponds to one compartment in the model. The values in a column are added to the current compartment of sampled individuals to specify the destination compartment, for example, a value of 1 in an entry means that sampled individuals in this compartment are moved to the next compartment. Which column to use for each event is specified by the shift vector (see below). N is an integer matrix.

event

Type of event: 0) exit, 1) enter, 2) internal transfer, and 3) external transfer. Other values are reserved for future event types and not supported by the current solvers. Integer vector.

time

Time of when the event occurs i.e., the event is processed when time is reached in the simulation. time is an integer vector.

node

The node that the event operates on. Also the source node for an external transfer event. Integer vector. 1 <= node[i] <= Number of nodes.

dest

The destination node for an external transfer event i.e., individuals are moved from node to dest, where 1 <= dest[i] <= Number of nodes. Set event = 0 for the other event types. dest is an integer vector.

n

The number of individuals affected by the event. Integer vector. n[i] >= 0.

proportion

If n[i] equals zero, the number of individuals affected by event[i] is calculated by sampling the number of individuals from a binomial distribution using the proportion[i] and the number of individuals in the compartments. Numeric vector. 0 <= proportion[i] <= 1.

select

To process event[i], the compartments affected by the event are specified with select[i] together with the matrix E, where select[i] determines which column in E to use. The specific individuals affected by the event are proportionally sampled from the compartments corresponding to the non-zero entries in the specified column in E[, select[i]], where select is an integer vector.

shift

Determines how individuals in internal transfer and external transfer events are shifted to enter another compartment. The sampled individuals are shifted according to column shift[i] in matrix N i.e., N[, shift[i]], where shift is an integer vector. See above for a description of N. Unsued for the other event types.