get_sims: Extract Network Simulations

In EpiModel: Mathematical Modeling of Infectious Disease Dynamics

Extract Network Simulations

Description

Subsets the entire netsim object to a subset of simulations, essentially functioning like a reverse of merge.

Usage

get_sims(x, sims, var)

Arguments

x	An object of class netsim.
sims	Either a numeric vector of simulation numbers to retain in the output object, or "mean", which selects the one simulation with the value of the variable specified in var closest to the mean of var across all simulations.
var	A character vector of variables to retain from x if sims is a numeric vector, or a single variable name for selecting the average simulation from the set if sims = "mean".

Value

An updated object of class netsim containing only the simulations specified in sims and the variables specified in var.

Examples

# Network model estimation
nw <- network_initialize(n = 100)
formation <- ~edges
target.stats <- 50
coef.diss <- dissolution_coefs(dissolution = ~offset(edges), duration = 20)
est1 <- netest(nw, formation, target.stats, coef.diss, verbose = FALSE)

# Epidemic model
param <- param.net(inf.prob = 0.3)
init <- init.net(i.num = 10)
control <- control.net(type = "SI", nsteps = 10, nsims = 3, verbose.int = 0)
mod1 <- netsim(est1, param, init, control)

# Get sim 2
s.g2 <- get_sims(mod1, sims = 2)

# Get sims 2 and 3 and keep only a subset of variables
s.g2.small <- get_sims(mod1, sims = 2:3, var = c("i.num", "si.flow"))

# Extract the mean simulation for the variable i.num
sim.mean <- get_sims(mod1, sims = "mean", var = "i.num")

EpiModel documentation built on July 9, 2023, 5:21 p.m.