plot.CatDynExp {CatDyn}

Exploratory Modeling of Fisheries with Catch Dynamic (generalized depletion) Models

Description

Evaluate and refine the goodness of initial parameter values before fitting catch dynamic models to data.

Usage

## S3 method for class 'CatDynExp'
plot(x, leg.pos, Biom.tstep, Cat.tstep, Biom.xpos, Biom.ypos,
                         Cat.xpos, Cat.ypos,
                         diagnostics.panels = TRUE, ...)

Arguments

x

An object of class CatDynExp

leg.pos

The position of the legend in the first panel. Passed to legend().

Biom.tstep

Integer. The number of time steps over which to average the population biomass counting from the end of the season backwards.

Cat.tstep

Integer. The number of time steps over which to add the catch counting from the end of the season backwards.

Biom.xpos

Numeric. The position of the biomass value on the x-axis of the first panel of the plot in relative units.

Biom.ypos

Numeric. The position of the biomass value on the y-axis of the first panel of the plot in relative units.

Cat.xpos

Numeric. The position of the catch value on the x-axis of the first panel of the plot in relative units.

Cat.ypos

Numeric. The position of the catch value on the y-axis of the first panel of the plot in relative units.

diagnostics.panels

Logical. Whether to plot deviance residual diagnostic panels (default to TRUE) or just the data and model prediction (diagnostics.panels = FALSE).

...

Further arguments to pass to plot(), hist().

Details

If the average population biomass over the whole season is to be posted then an integer equal to the number of time steps in the season shall be entered for the Biom.tstep argument.

Value

A four panel plot of data, model predictions, and residual analysis.

Note

The target symbols on the bottom of the tope left panel are the timings of any perturbations set by the user. In transit stock fisheries and resident stock fisheries with emigration, entry target symbols are in red and exit target symbols are in blue.

Author(s)

Ruben H. Roa-Ureta (ORCID ID 0000-0002-9620-5224)

References

Roa-Ureta, R. H. 2012. ICES Journal of Marine Science 69(8):1403-1415.

Examples

#See examples for CatDynFit().