plot_historical_probs_retro: Make individual plots (or one overlaid) of historical...

In pacific-hake/hake-assessment: Stock Assessment for Pacific Hake

Make individual plots (or one overlaid) of historical probability calculations that uses retrospective runs (given we have them). Calls make.historical.probs.plot() for each retrospective

Description

Make individual plots (or one overlaid) of historical probability calculations that uses retrospective runs (given we have them). Calls make.historical.probs.plot() for each retrospective

Usage

plot_historical_probs_retro(
  model,
  hist_probs,
  type = "decline",
  xLim = c(2012, assess_yr),
  make.one.figure = TRUE,
  cols = c("lightgrey", "darkgreen", "lightgreen", "brown", "pink", "orange", "gold",
    "darkgrey", "violet", "black"),
  time.sleep = 0,
  omit.current = TRUE,
  select.retros = NULL,
  lwd.val.for.retros = 1,
  legend.text.model = "From current base model",
  ...
)

Arguments

model	Model with retrospectives
hist_probs	A data frame containing the data found in assessment-history-probs.csv
type	One of decline or bforty as needed for make.historical.probs.plot()
xLim	Range of x (years) axis
make.one.figure	Whether to plot everything on one figure or new figure for each retro.
cols	Vector colors to use
time.sleep	Seconds to pause between plots
omit.current	Omit current base model plot when doing individual plots (e.g. for panel plot don't need it, probably already shown it)
select.retros	Vector of retrospective runs to use, where 1:4 would be the earliest four retrospective runs (for not doing all plots to be able to spread them out over multiple pages)
lwd.val.for.retros	lwd for retro lines, default of 1 is for one figure
legend.text.model	text to describe model in the legend
...	Arguments to pass to make.historical.probs.plot()

pacific-hake/hake-assessment documentation built on Jan. 14, 2025, 9:12 p.m.