plot_selex_posteriors: Plot the selectivity parameter estimates from all posteriors...
In pacific-hake/hake-assessment: Stock Assessment for Pacific Hake

plot_selex_posteriors

R Documentation

Plot the selectivity parameter estimates from all posteriors as many lines with an overlaid errorbar for each age

Description

Plot the selectivity parameter estimates from all posteriors as many lines with an overlaid errorbar for each age

Usage

plot_selex_posteriors(
  model = NULL,
  type = c("fishery", "survey"),
  n_posts = NULL,
  age_range = NULL,
  show_xlab = TRUE,
  post_line_width = 0.1,
  post_line_color = "black",
  post_line_alpha = 0.1,
  post_med_line_width = 1,
  post_med_line_color = "blue3",
  post_med_line_alpha = 1,
  post_line_gap = ts_linegap,
  post_med_point_size = 3,
  unc_line_width = 1,
  unc_line_color = "blue3",
  unc_line_alpha = 1,
  unc_point_size = 3,
  glow = FALSE,
  glow_offset = 0.5,
  glow_color = "white",
  glow_alpha = 1
)

Arguments

`model`	A model list, created by `create_rds_file()`
`type`	One of 1 or 2 where 1 = Fishery and 2 = Acoustic age 2+ survey
`n_posts`	The number of posterior lines to plot. The lines are randomly drawn from all posteriors. if this is larger than the number of posteriors, all posterior lines will be shown
`age_range`	A vector of two for the min and max ages to plot. If `NULL`, all ages in the data will be plotted
`show_xlab`	Logical. If `TRUE`, show the X-axis label. If `FALSE`, omit it
`post_line_width`	Thickness of the posterior lines
`post_line_color`	Color of the posterior lines
`post_line_alpha`	Transparency of the posterior lines
`post_med_line_width`	Thickness of the median posterior line
`post_med_line_color`	Color of the median posterior line
`post_med_line_alpha`	Transparency of the median posterior line
`post_med_point_size`	Size of the points on the median posterior line
`unc_line_width`	Thickness of the uncertainty lines
`unc_line_color`	Color of the uncertainty lines and points
`unc_line_alpha`	Transparency for the uncertainty lines and points
`unc_point_size`	Size of the points
`glow`	Logical. If `TRUE`, add a white glow around the lines so that they can more easily be seen in contrast to the background posterior lines
`glow_offset`	The amount to add to the thickness of the lines and diameter of the points to create the glow effect
`glow_color`	Color of the glow effect
`glow_alpha`	Transparency of the glow effect
`probs`	A vector of two quantiles to include for the uncertainty