read_pars: Read in parameters from an AD Model Builder run
In R2admb: ADMB to R interface functions

Description Usage Arguments Details Value Warning Author(s) See Also

Reads coefficients, standard errors, log-likelihoods, maximum gradients, correlation and variance-covariance matrices from AD Model Builder output files

1 2	read_pars(fn,drop_phase=TRUE) read_psv(fn,names)

`fn`	(character) Base name of AD Model Builder
`names`	(character) Names of variables
`drop_phase`	(logical) drop negative-phase (fixed) parameters from results?

Given the output from an ADMB run on FOO.tpl, read_pars reads the files FOO.par (parameters, log-likelihood, max gradient); FOO.std (standard deviations); and FOO.cor (correlations). read_psv reads the output of MCMC runs

`coefficients`	parameter estimates
`coeflist`	parameter estimates in list format, with proper shape (vectors, matrices, etc.)
`se`	estimated standard errors of coefficients
`loglik`	log-likelihood
`maxgrad`	maximum gradient of log-likelihood surface
`cor`	correlation matrix
`vcov`	variance-covariance matrix
`npar`	number of parameters

The coeflist component is untested for data structures more complicated than scalars, vectors or matrices (i.e. higher-dimensional or ragged arrays)

Ben Bolker

write_pin, write_dat

R2admb documentation built on May 2, 2019, 5:19 p.m.