plot_scaled_abundance: ———————- Plot the median SSB as a line, with...

In pbs-assess/herringutils: Provides Plotting, Table-making, and Utility Functions for the CSAS Herring Documents

———————————————————————————————– Plot the median SSB as a line, with points which are survey index scaled by catchability value for the survey

Description

———————————————————————————————– Plot the median SSB as a line, with points which are survey index scaled by catchability value for the survey

Usage

plot_scaled_abundance(
  df,
  model,
  gear,
  new_surv_yr = NA,
  point_size = 1,
  line_size = 0.75,
  prod_yrs = 1990:1999,
  show_prod_yrs = TRUE,
  xlim = NA,
  show_x_axis = TRUE,
  show_y_axis = TRUE,
  x_axis_label_size = 8,
  x_axis_tick_label_size = 8,
  y_axis_label_size = 8,
  y_axis_tick_label_size = 8,
  x_axis_label_newline_length = 50,
  y_axis_label_newline_length = 40,
  x_axis_position = "bottom",
  y_axis_position = "left",
  annot = "a",
  show_legend = FALSE,
  translate = FALSE
)

Arguments

df	Data frame of the survey estimates, as constructed by [get_surv_ind()]
model	an iscam model object
gear	a gear data frame containing 'gear', 'gearname', and 'qind' columns
new_surv_yr	the year when the survey changed from surface to dive
point_size	size for points
line_size	thickness of line
prod_yrs	Numeric vector. Productive period to calculate the USR. Default 1990:1999.
show_prod_yrs	Logical. Show vertical band for productive period. Default TRUE.
xlim	x-limits for the plot. Implemented with [ggplot2::coord_cartesian()]
show_x_axis	see [modify_axes_labels()]
show_y_axis	see [modify_axes_labels()]
x_axis_label_size	see [modify_axes_labels()]
x_axis_tick_label_size	see [modify_axes_labels()]
y_axis_label_size	see [modify_axes_labels()]
y_axis_tick_label_size	see [modify_axes_labels()]
x_axis_label_newline_length	see [newline_format()]
y_axis_label_newline_length	see [newline_format()]
annot	a character to place in parentheses in the top left of the plot. If NA, nothing will appear
show_legend	Logical
translate	Logical. If TRUE, translate to french

Value

A ggplot object

pbs-assess/herringutils documentation built on Jan. 10, 2025, 8:43 a.m.