run_simulation: run_simulation
In elaineliu5/DVM: Disease Vector Modeling

Description Usage Arguments Value Examples

run_simulation takes in a species name, a month, the number of samples to draw for that month, a region and optionally the environment layer resolution. It performs the simulation for the species' population sampling in the region across different months.

1	run_simulation(species_name, month, N, region, resolution = 10)

`species_name`	a vector containing genus and species name
`month`	an interger (1-12) indicating the month of interest
`N`	number of species samples to draw in the reference month
`region`	a vector of region names specifying a region of interest from national levels down to county levels
`resolution`	the spatial resolution of environmental layers (10, 5, or 2.5 (arc min))

log: a raster stack of logistic probability raster of the given region by month

sample: a list of sample points (spatial points) drawn from the given region by month

range: the range of logistic probabilities in the given region across all months useful for setting a common color scale when plotting the probability rasters for all months

N: number of samples drawn from each month (proportionate to the reference month sample size by ratio of mean logistic probabilities)

region1 <- c("USA", "Pennsylvania")
species_name1 <- c("Ixodes", "ricinus", "Linnaeus")
species_name2 <- c("mus", "musculus")
result1 <- run_simulation(species_name1, month, N, region1, resolution)
result2 <- run_simulation(species_name2, month, N, region1, resolution)