plot_dlm: Plot data-limited stock assessment model output

In cfree14/datalimited2: More Stock Assessment Methods for Data-limited Fisheries

Plot data-limited stock assessment model output

Description

Plots the results of data-limited stock assessment models implemented in the datalimited2 package.

Usage

plot_dlm(output)

Arguments

output

Output from a datalimited2 model

Details

Produces different plots for each model:

1. zBRT - Plots show: (A) catch time series; (B) saturation time series; and (C) B/BMSY time series.

2. OCOM - Plots show: (A) catch time series; (B) viable r/K pairs; (C) saturation time series; and (D) B/BMSY time series.

3. cMSY / BSM - Plots show: (A) catch time series; (B) viable r/K pairs; (C) B/BMSY time series; (D) F/FMSY time series; and (E) Kobe plot.

4. MS-cMSY - Plots show: (A) viable and effort constrained r/K pairs; (B) viable and effort constrained B/BMSY time series with final estimate.

In all plots, dashed lines show the reference point target (i.e., B/BMSY = 1, F/FMSY = 1, or saturation = 0.5) and dotted lines show the overfishing limit (i.e., B/BMSY = 0.5 or saturation = 0.25). If MSY is estimated, the median value and 95% confidence intervals are shown in the catch time series plot as a horizontal dashed line and grey rectangle, respectively.

Examples

# Fit OCOM to catch time series and plot output
output <- ocom(year=YELLSNEMATL$year, catch=YELLSNEMATL$catch, m=0.2)
plot_dlm(output)

cfree14/datalimited2 documentation built on Aug. 21, 2023, 2:26 p.m.