plot.fcs2Fit: Plot FCS2 Model Fit
In aquaMetrics/fcs2: Fisheries Classification Scheme 2 For SNIFFER

Description Usage Arguments Details See Also

Produces density plots of the prior and posterior estimates of each variable in the FCS2 model. Can also produce series plots that display the relationship between each covariate and the corresponding abundance or prevalence component.

## S3 method for class 'fcs2Fit'
plot(
  x,
  variables = variable.names(x),
  prior = TRUE,
  posterior = !is.null(x$bugsFit),
  inla = !posterior,
  legend = TRUE,
  samples = FALSE,
  groupLinearVars = posterior,
  ...
)

`x`	an `"fcs2Fit"` object, as returned from `fcs2FitModel`.
`variables`	an optional character vector giving the names of the model variables to plot. `fcs2:::variable.names.fcs2Fit` can be used for this.
`prior`	whether to plot the prior distribution. These are only available for plots of the density of a single variable.
`posterior`	whether to plot the posterior distribution, as estimated from BUGS samples (if available).
`inla`	whether to plot the approximate posterior estimates produced by INLA (if available).
`legend`	whether to add a legend to each plot.
`samples`	whether to display the individual posterior samples rather than summarising each posterior term.
`groupLinearVars`	whether to group multiple linear terms of the same covariate together to display the overall covariate relationship rather than each density estimate. This is not available for the prior and INLA only produces a mean estimate of the relationship based on the false assumption of independence between the linear parameters. Therefore the INLA relationship line should only be used as a rough guide when multiple terms exist.
`...`	Not used in this function