fit: Fit cystiSim parameters

In cystiSim: Agent-Based Model for Taenia_solium Transmission and Control

Description

This function simulates random cystiSim parameters, and return those scenarios that result in a baseline prevalence close to the specified target.

Usage

fit(n.sim, n.update, target, limit,
    man, pig, ph2m, pl2m, m2p, e2p, age.coef = c(0, 0),
    slaughter = slaughter_nbinom,
    slaughter.args = list(min = 6,  max = 36, size = 0.70, mu = 80))

Arguments

n.sim	Desired number of retained scenarios.
n.update	Number of updates of the baseline model.
target	Named list of target prevalences for ht, pc and/or pi
limit	Maximum tolerated deviance.
man	Human population dataframe.
pig	Pig population dataframe.
ph2m	Pig (Heavy infection) to Man transmission probability.
pl2m	Pig (Light infection) to Man transmission probability.
m2p	Man to Pig transmission probability.
e2p	Environment to Pig transmission probability.
age.coef	Optional intercept and slope for the association between age and taeniosis.
slaughter	Function that defines the slaughter probability of pigs.
slaughter.args	Arguments to be passed to the slaughter function.

Details

The abbreviations used:

• ht....Human Taeniosis prevalence

• pc....Porcine Cysticercosis prevalence

• pi....Pig Intensity proportion (i.e., proportion heavily infection pigs)

Note

For more details and examples, please visit the cystiSim Wiki pages on https://github.com/brechtdv/cystiSim/wiki.

Author(s)

[e-mail]

cystiSim documentation built on May 2, 2019, 7:25 a.m.