plot.srr: Plot the stock-recruitment relationship

Description Usage Arguments

View source: R/recruitment.plots.r

Description

For each model, the fitted Beverton-Holt stock-recruiment relationship is plotted. Estimated adult biomass and recruitment is also plotted.

Usage

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plot.srr(
  rep.list,
  rep.names = NULL,
  show.legend = TRUE,
  palette.func = default.model.colours,
  save.dir,
  save.name,
  annual = FALSE,
  sb.units = 1000,
  rec.units = 1e+06,
  ...
)

Arguments

rep.list

A list of MFCLRep objects or a single MFCLRep object. The reference model should be listed first.

rep.names

A vector of character strings naming the models for plotting purposes. If not supplied, model names will be taken from the names in the rep.list (if available) or generated automatically.

show.legend

Do you want to show the plot legend, TRUE (default) or FALSE.

palette.func

A function to determine the colours of the models. The default palette has the reference model in black. It is possible to determine your own palette function. Two functions currently exist: default.model.colours() and colourblind.model.colours().

save.dir

Path to the directory where the outputs will be saved

save.name

Name stem for the output, useful when saving many model outputs in the same directory

annual

Boolean. Do you want to plot the annual or seasonal SRR. Default is FALSE

sb.units

Divisor for rescaling the biomass units. Default is 1000

rec.units

Divisor for rescaling the recruitment units. Default is 1000000

...

Passes extra arguments to the palette function. Use the argument all.model.colours to ensure consistency of model colours when plotting a subset of models.


PacificCommunity/ofp-sam-diags4MFCL documentation built on July 18, 2021, 9:25 a.m.