Methods for lfMsAbund Object

Methods for extracting information from fitted latent factor multivariate abundance GLMMs (lfMsAbund).

Usage

# S3 method for lfMsAbund
summary(object, level = 'both', quantiles = c(0.025, 0.5, 0.975), 
        digits = max(3L, getOption("digits") - 3L), ...)
# S3 method for lfMsAbund
print(x, ...)
# S3 method for lfMsAbund
plot(x, param, density = TRUE, ...)

Arguments

object, x

object of class lfMsAbund.

level

a quoted keyword that indicates the level to summarize the model results. Valid key words are: "community", "species", or "both".

quantiles

for summary, posterior distribution quantiles to compute.

digits

for summary, number of digits to report.

param

parameter name for which to generate a traceplot. Valid names are "beta", "beta.star", "sigma.sq.mu", "tau.sq", "beta.comm", "tau.sq.beta", "lambda".

density

logical value indicating whether to also generate a density plot for each parameter in addition to the MCMC traceplot.

...

currently no additional arguments

Details

A set of standard extractor functions for fitted model objects of class lfMsAbund, including methods to the generic functions print, summary, and plot.

Value

No return value, called to display summary information of a lfMsAbund object.