Epidemic Simulation Simulation Configuration
Source:R/config_simulation_epidemic.R
config_simulation_epidemic.RdA toy one-year outbreak parameter set for quick unit-tests and
vignette examples.
The object is created by make_simulation_epidemic_config_files.R and saved in
the package as config_simulation_epidemic.
Format
A named list identical in structure to
config_default but much smaller. Key elements include
day-by-day matrices (b_jt, d_jt, psi_jt, …), initial state vectors,
and placeholder reported_cases / reported_deaths.
Details
| Aspect | Setting |
| Time span | 1 Jan 2020 – 31 Dec 2020 (365 days). |
| Locations | “FOO” (5 k), “BAR” (10 k), “BAZ” (20 k). |
| Initial mix | 50 % susceptible, 20–30 % first-dose vaccinated, 3 seeding infections in “FOO”. |
| Transmission | Baseline \(\beta\) fixed per site: 0.30, 0.50, 0.40 with ±0.15 seasonal sine forcing. |
| Mobility | Daily departure probabilities \(\tau_i\) = 0.005, 0.002, 0.006. |
| Environment | Flat suitability (\(\psi = 0.7\)), short environmental half-life (decay_days_long = 90). |
| Observed data | reported_cases / reported_deaths matrices are filled with NA (no real surveillance data). |
| Seed | set.seed(999999999) for full reproducibility. |
These settings produce a single, clearly defined epidemic wave in each patch—especially pronounced in “BAR”, which has the highest baseline transmission (\(\beta = 0.50\)). The configuration is small enough to run in fractions of a second yet exercises all major engine components, making it ideal for automated tests and teaching materials.
See also
config_simulation_endemic – long-run endemic scenario.
config_default – comprehensive default configuration.
make_simulation_epidemic_config_files.R– script that generates this object.