events_SIR: Example data to initialize events for the 'SIR' model

In SimInf: A Framework for Data-Driven Stochastic Disease Spread Simulations

Example data to initialize events for the ‘SIR’ model

Description

Example data to initialize scheduled events for a population of 1600 nodes and demonstrate the SIR model.

Usage

events_SIR()

Details

Example data to initialize scheduled events (see SimInf_events) for a population of 1600 nodes and demonstrate the SIR model. The dataset contains 466692 events for 1600 nodes distributed over 4 * 365 days. The events are divided into three types: ‘Exit’ events remove individuals from the population (n = 182535), ‘Enter’ events add individuals to the population (n = 182685), and ‘External transfer’ events move individuals between nodes in the population (n = 101472). The vignette contains a detailed description of how scheduled events operate on a model.

Value

A data.frame

Examples

## Create an 'SIR' model with 1600 nodes and initialize
## it to run over 4*365 days. Add one infected individual
## to the first node.
u0 <- u0_SIR()
u0$I[1] <- 1
tspan <- seq(from = 1, to = 4*365, by = 1)
model <- SIR(u0     = u0,
             tspan  = tspan,
             events = events_SIR(),
             beta   = 0.16,
             gamma  = 0.01)

## Display the number of individuals affected by each event type
## per day.
plot(events(model))

## Run the model to generate a single stochastic trajectory.
result <- run(model)
plot(result)

## Summarize the trajectory. The summary includes the number of
## events by event type.
summary(result)

SimInf documentation built on Jan. 23, 2023, 5:43 p.m.