plot_at_Age: Plot at-Age schedules

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Plot at-Age schedules

Description

Plots Length, Weight, Maturity, Natural-Mortality, Selectivity, and Retention-at-Age schedules.

Usage

plot_at_Age(
  x,
  quantiles = c(0.025, 0.975),
  scale = NULL,
  variable = "Length",
  xlab = "Age (Year)",
  ylab = NULL,
  title = "",
  years = NULL,
  alpha = 0.1,
  lwd = 1,
  use_theme = NULL,
  colpalette = "Dark2",
  print = TRUE
)

plot_Length(x, ...)

plot_Weight(x, ...)

plot_Maturity(x, ...)

plot_N.Mortality(x, ...)

plot_Select(x, ...)

plot_Retention(x, ...)

plot_Select_Maturity(x, ...)

Arguments

x	An object of class Hist, MSE, or a list of Hist or MSE objects
quantiles	Lower and upper quantiles to calculate. Numeric vector of length 2.
scale	An optional function with a single numeric argument that returns transformed or scaled numeric values. See lb2kg and kg2lb for example. Can be a list of functions for list objects (NA for no transformation)
variable	String. One of 'Length', 'Weight', 'N.Mortality','Maturity', 'Select', 'Retention'
xlab	X-axis label (default 'Age (Year)')
ylab	Y-axes label
title	Optional title
years	Optional numeric vector specifying the years to plot. Default is the first and last historical year, and the last projection year
alpha	Transparency parameter
lwd	Line width
use_theme	Optional ggplot theme
colpalette	Color palette from RColorBrewer
print	Logical. Print the plot?
...	Named arguments passed to plot_at_Age

Details

Note that the Selectivity and Retention curves in these plots are from the operating model. If an MP changes the selectivity/retention, this is not shown in these plots.

Value

A named list with:

p	The ggplot object
df	Data.frame with the summary statistics (median and quantiles)

Functions

• plot_Length(): Plot Length-at-Age

• plot_Weight(): Plot Weight-at-Age

• plot_Maturity(): Plot Maturity-at-Age

• plot_N.Mortality(): Plot N.Mortality-at-Age

• plot_Select(): Plot Selectivity-at-Age

• plot_Retention(): Plot Retention -at-Age

• plot_Select_Maturity(): Plot Selectivity-, Retention-, and Maturity-at-Age

openMSE documentation built on Sept. 30, 2024, 9:32 a.m.