Simple plotting functions — plot

These functions are simple plotting helpers to get some quick visuals of values produced by sim_abundance, sim_distribution, etc.

plot_trend(sim, sum_ages = sim$ages, col = viridis::viridis(1), ...)

plot_surface(sim, mat = "N", xlab = "Age", ylab = "Year", zlab = mat, ...)

plot_grid(grid, ...)

plot_distribution(
  sim,
  ages = sim$ages,
  years = sim$years,
  type = "contour",
  scale = "natural",
  ...
)

plot_survey(sim, which_year = 1, which_sim = 1)

plot_total_strat_fan(sim, surveys = 1:5, quants = seq(90, 10, by = -10), ...)

plot_length_strat_fan(
  sim,
  surveys = 1:5,
  years = 1:10,
  lengths = 1:50,
  select_by = "year",
  quants = seq(90, 10, by = -10),
  ...
)

plot_age_strat_fan(
  sim,
  surveys = 1:5,
  years = 1:10,
  ages = 1:10,
  select_by = "year",
  quants = seq(90, 10, by = -10),
  ...
)

plot_error_surface(sim, plot_by = "rule")

plot_survey_rank(sim, which_strat = "age")

Arguments

sim: Object returned by sim_abundance, sim_distribution, etc.
sum_ages: Sum across these ages
col: Plot color
...: Additional arguments to pass to plot_ly.
mat: Name of matrix in sim list to plot.
xlab, ylab, zlab: Axes labels.
grid: Grid produced by make_grid.
ages: Subset data to one or more ages.
years: Subset data to one or more years.
type: Plot type: "contour" or "heatmap".
scale: Plot response on "natural" or "log" scale?
which_year: Subset to specific year
which_sim: Subset to specific sim
surveys: Subset data to one or more surveys.
quants: Quantile intervals to display on fan plot
lengths: Subset data to one or more length groups.
select_by: Select plot by "age", "length" or "year"?
plot_by: Plot error surface by "rule" or "samples"?
which_strat: Which strat values to focus on? (total, length, or age)

Value

Returns a plot of class plotly.