SSplotSPR: Plot Spawning Potential Ratio (SPR) quantities.

In r4ss: R Code for Stock Synthesis

Plot Spawning Potential Ratio (SPR) quantities.

Description

Plot time series of SPR, 1-SPR, the chosen SPR ratio and the phase plot.

Usage

SSplotSPR(
  replist,
  add = FALSE,
  plot = TRUE,
  print = FALSE,
  uncertainty = TRUE,
  subplots = 1:4,
  forecastplot = FALSE,
  col1 = "black",
  col2 = "blue",
  col3 = "green3",
  col4 = "red",
  sprtarg = "default",
  btarg = "default",
  labels = c("Year", "SPR", "1-SPR", "Relative fishing intensity",
    "Relative spawning output"),
  pwidth = 6.5,
  pheight = 5,
  punits = "in",
  res = 300,
  ptsize = 10,
  cex.main = 1,
  plotdir = "default",
  verbose = TRUE
)

Arguments

replist	A list object created by SS_output().
add	add to existing plot (not yet implemented)
plot	plot to active plot device?
print	print to PNG files?
uncertainty	include plots showing uncertainty?
subplots	vector controlling which subplots to create Numbering of subplots is as follows: timeseries of SPR, timeseries of 1 - SPR, timeseries of SPR ratio (as specified in the starter file), and phase plot of Biomass ratio vs SPR ratio (as specified in the starter file).
forecastplot	Include forecast years in plot?
col1	first color used
col2	second color used
col3	third color used
col4	fourth color used
sprtarg	F/SPR proxy target. "default" chooses based on model output, where models which have SPR_report_basis = 0 or 1 specified in the starter file will use the SPR target specified in the forecast file. Models which have SPR_report_basis = 2 will use SPR at MSY for the SPR target and models which have the SPR_report_basis = 3 will use SPR at Btarget for the SPR target in these plots. Zero or negative values of sprtarg input here will cause no horizontal line to be plotted.
btarg	target depletion to be used in plots showing depletion. May be omitted by setting to NA. "default" chooses based on model output.
labels	vector of labels for plots (titles and axis labels)
pwidth	width of plot
pheight	height of plot
punits	units for PNG file
res	Resolution of plots printed to files. The default is res = 300.
ptsize	point size for PNG file
cex.main	character expansion for plot titles
plotdir	directory where PNG files will be written. by default it will be the directory where the model was run.
verbose	report progress to R GUI?

Author(s)

Ian Stewart, Ian Taylor

See Also

SS_plots(), SS_output()

r4ss documentation built on May 28, 2022, 1:11 a.m.