Takes in data from the R pomp package where the output is a data frame and puts it in SIR format for EpiCompare.

Source: R/fortify-aggregate-pomp-list.R

Takes in data from the R pomp package where the output is a data frame and puts it in SIR format for EpiCompare.

# S3 method for pomp_list
fortify_aggregate(data, states = c("S", "I", "R"), package_source = NULL)

Arguments

data

Output from a pomp simulation where the output is a data frame, pomp::simulate()
states

vector of state names. These are strings.
package_source

optional package name

Value

data frame with the following columns

t

the time

sim

simulation number (factor variable) (optional column)

Xk

where k = 0, ..., K

Details

The default variables that are retained are SIR, but can be modified with the states argument. If codestates = NULL, we will attempt to find all single letter names in POMP and output those. This is an internal function.