AIC.admb: Standard accessor functions for ADMB model fits

In R2admb: 'ADMB' to R Interface Functions

Standard accessor functions for ADMB model fits

Description

Extract standard information such as log-likelihood, AIC, coefficients, etc. from ADMB model fits

Usage

## S3 method for class 'admb'
AIC(object, ..., k = 2)

## S3 method for class 'admb'
confint(object, parm, level = 0.95, method = "default",
  type = "fixed", ...)

## S3 method for class 'admb'
print(x, verbose = FALSE, ...)

## S3 method for class 'admb'
summary(object, correlation = FALSE, symbolic.cor = FALSE,
  ...)

## S3 method for class 'summary.admb'
print(x, digits = max(3, getOption("digits") - 3),
  symbolic.cor = x$symbolic.cor,
  signif.stars = getOption("show.signif.stars"), ...)

## S3 method for class 'admb'
logLik(object, ...)

## S3 method for class 'admb'
coef(object, type = "fixed", ...)

## S3 method for class 'admb'
vcov(object, type = "fixed", ...)

stdEr(object, ...)

## S3 method for class 'admb'
stdEr(object, type = "fixed", ...)

## S3 method for class 'admb'
deviance(object, ...)

Arguments

object	an ADMB model fit (of class "admb")
...	other parameters (for S3 generic compatibility)
k	penalty value for AIC fits
parm	(currently ignored: FIXME) select parameters
level	alpha level for confidence interval
method	(character): "default" or "quad", quadratic (Wald) intervals based on approximate standard errors; "profile", profile CIs (if profile was computed); "quantile", CIs based on quantiles of the MCMC-generated posterior density (if MCMC was computed); "HPDinterval", CIs based on highest posterior density (ditto)
type	which type of parameters to report. Character vector, including one or more of "fixed" or "par" (standard, fixed-effect parameters); "random" (random effect parameters); "rep" (report variables); "sdrpt" (sdreport variables); "extra" (report and sdreport); "all" (all of the above).
x	an ADMB model fit (of class "admb")
verbose	show messages
correlation	currently unused parameter
symbolic.cor	currently unused parameter
digits	number of digits to display
signif.stars	show significance stars?

Value

Extracts appropriate values: numeric (scalar) for AIC, type logLik for logLik, numeric vector of coefficients, numeric variance-covariance matrix of parameter estimates

Examples

 admbex <- system.file("doc","Reedfrog_runs.RData",package="R2admb")
 load(admbex)
 m1
 coef(m1)
 summary(m1)
 coef(summary(m1)) ## returns just z-table
 AIC(m1)
 vcov(m1)
 logLik(m1)
 deviance(m1)
 stdEr(m1)

R2admb documentation built on Nov. 10, 2022, 5:59 p.m.