pomp (version 4.2)

traces: Traces

Description

Retrieve the history of an iterative calculation.

Usage

# S4 method for mif2d_pomp
traces(object, pars, transform = FALSE, ...)
# S4 method for mif2List
traces(object, pars, ...)
# S4 method for abcd_pomp
traces(object, pars, ...)
# S4 method for abcList
traces(object, pars, ...)
# S4 method for pmcmcd_pomp
traces(object, pars, ...)
# S4 method for pmcmcList
traces(object, pars, ...)

Arguments

object

an object of class extending ‘pomp’, the result of the application of a parameter estimation algorithm

pars

names of parameters

transform

logical; should the traces be transformed back onto the natural scale?

…

ignored or passed to the more primitive function

Value

When object is the result of a mif2 calculation, traces(object, pars) returns the traces of the parameters named in pars. By default, the traces of all parameters are returned. If transform=TRUE, the parameters are transformed from the natural scale to the estimation scale.

When object is a ‘abcd_pomp’, traces(object) extracts the traces as a coda::mcmc.

When object is a ‘abcList’, traces(object) extracts the traces as a coda::mcmc.list.

When object is a ‘pmcmcd_pomp’, traces(object) extracts the traces as a coda::mcmc.

When object is a ‘pmcmcList’, traces(object) extracts the traces as a coda::mcmc.list.

Details

Note that pmcmc does not currently support parameter transformations.

See Also

Other extraction methods: coef(), cond.logLik(), covmat(), eff.sample.size(), filter.mean(), filter.traj(), forecast(), logLik, obs(), pred.mean(), pred.var(), saved.states(), spy(), states(), summary(), timezero(), time()