plot.pred.obs.cpue: Plot time series of the predicted and observed CPUE for...

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

Plot time series of the predicted and observed CPUE for selected fisheries

Description

Plot observed (colored points) and model-predicted (black lines) CPUE for selected fisheries The color of the point indicates the penalty applied to the observed CPUE where brighter colors indicate a larger penalty.

Usage

plot.pred.obs.cpue(
  frq = frq,
  par = par,
  fisheries,
  fishery_names,
  save.dir,
  save.name
)

Arguments

frq	An object of type MFCLFrq that contains the observed catch, effort and penalty data.
par	An object of MFCLPar that contains the effort devs.
fisheries	The numbers of the fisheries to plot.
fishery_names	The names of the fisheries to plot.
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

Details

The observed CPUE is calculated from the observed catches and effort in the 'freq' file. The model-predicted CPUE is calculated from the observed catches in the 'freq' file and the model-estimated effort (from applying the estimated effort devs to the observed effort in the 'freq' file .) The CPUE series are normalised by dividing by the mean before plotting. (The difference between the predicted and observed time series is therefore just the effort devs).

PacificCommunity/ofp-sam-diags4MFCL documentation built on Oct. 11, 2023, 1:32 a.m.