plot.pred.obs.catch: Plot difference between observed and predicted catches

In PacificCommunity/ofp-sam-diags4MFCL: R Functions for Presenting MULTIFAN-CL Results and Diagnostics

Plot difference between observed and predicted catches

Description

Plot difference between observed and predicted catches. The differences can be scaled by the total catch of each fishery. Multiple models can be passed in.

Usage

plot.pred.obs.catch(
  rep.list,
  rep.names = NULL,
  fisheries,
  fishery_names,
  scale.diff = TRUE,
  show.legend = TRUE,
  show.points = FALSE,
  palette.func = default.model.colours,
  save.dir,
  save.name,
  ...
)

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.
fisheries	The numbers of the fisheries to plot.
fishery_names	The names of the fisheries to plot.
show.legend	Do you want to show the plot legend, TRUE (default) or FALSE.
show.points	Do you want to show points as well as the smoother for the difference plots? Default is 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
...	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 Oct. 11, 2023, 1:32 a.m.