Plot at-Age schedules — plot_at

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

Value

A named list with:

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

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.

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