mif-methods {pomp}R Documentation

Methods of the "mif" class

Description

Methods of the "mif" class.

Usage

## S4 method for signature 'mif':
logLik(object, ...)
conv.rec(object, ...)
## S4 method for signature 'mif':
conv.rec(object, pars, ...)
pred.mean(object, ...)
## S4 method for signature 'mif':
pred.mean(object, pars, ...)
pred.var(object, ...)
## S4 method for signature 'mif':
pred.var(object, pars, ...)
filter.mean(object, ...)
## S4 method for signature 'mif':
filter.mean(object, pars, ...)
## S4 method for signature 'mif':
plot(x, y = NULL, ...)
compare.mif(z)

Arguments

object The mif object.
pars Names of parameters.
x The mif object.
y Ignored.
z A mif object or list of mif objects.
... Further arguments (either ignored or passed to underlying functions).

Methods

conv.rec
conv.rec(object, pars = NULL) returns the columns of the convergence-record matrix corresponding to the names in pars. By default, all rows are returned.
logLik
Returns the value in the loglik slot.
mif
Re-runs the MIF iterations. See the documentation under Re-running MIF Iterations below.
compare.mif
Given a mif object or a list of mif objects, compare.mif produces a set of diagnostic plots.
plot
Plots a series of diagnostic plots. When x is a mif object, plot(x) is equivalent to compare.mif(list(x)).
pred.mean
pred.mean(object, pars = NULL) returns the rows of the prediction-mean matrix corresponding to the names in pars. By default, all rows are returned.
pred.var
pred.var(object, pars = NULL) returns the rows of the prediction-variance matrix corresponding to the names in pars. By default, all rows are returned.
filter.mean
filter.mean(object, pars = NULL) returns the rows of the filtering-mean matrix corresponding to the names in pars. By default, all rows are returned.
predvarplot
predvarplot(object, pars = NULL, mean = FALSE, ...) produces a plot of the scaled prediction variances for each parameter. This can be used to diagnose a good value of the mif parameters CC and T0. If used in this way, one should run mif with Nmif=1 first. Additional arguments in ... will be passed to the actual plotting function.
print
Prints a summary of the mif object.
show
Displays the mif object.
pfilter
See pfilter-mif.

Author(s)

Aaron A. King (kingaa at umich dot edu)

References

E. L. Ionides, C. Bret'o, & A. A. King, Inference for nonlinear dynamical systems, Proc. Natl. Acad. Sci. U.S.A., 103:18438–18443, 2006.

See Also

mif, pomp, pomp-class, pfilter


[Package pomp version 0.22-6 Index]