SSplotDiscard {r4ss}

Plot fit to discard fraction.

Description

Plot fit to discard fraction from Stock Synthesis output file.

Usage

SSplotDiscard(
  replist,
  subplots = 1:2,
  plot = TRUE,
  print = FALSE,
  plotdir = "default",
  fleets = "all",
  fleetnames = "default",
  datplot = FALSE,
  labels = c("Year", "Discard fraction", "Total discards", "for"),
  yhi = 1,
  ymax = NULL,
  col1 = "blue",
  col2 = "black",
  pwidth = 6.5,
  pheight = 5,
  punits = "in",
  res = 300,
  ptsize = 10,
  cex.main = 1,
  verbose = TRUE
)

Arguments

replist

A list object created by SS_output().

subplots

Vector of which plots to make (1 = data only, 2 = with fit). If plotdat = FALSE then subplot 1 is not created, regardless of choice of subplots.

plot

Plot to active plot device?

print

Print to PNG files?

plotdir

Directory where PNG files will be written. by default it will be the directory where the model was run.

fleets

Optional vector to subset fleets for which plots will be made

fleetnames

Optional replacement for fleenames used in data file

datplot

Make data-only plot of discards? This can override the choice of subplots.

labels

Vector of labels for plots (titles and axis labels)

yhi

Maximum y-value which will always be included in the plot (all data included regardless). Default = 1 so that discard fractions are always plotted on a 0-1 range, but total discard amounts which are greater than this value will exceed it.

ymax

Optional maximum y-value to include (useful if upper tails on discard amounts are very high)

col1

First color to use in plot (for expected values)

col2

Second color to use in plot (for observations and intervals)

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

verbose

Report progress to R GUI?

Author(s)

Ian G. Taylor, Ian J. Stewart, Robbie L. Emmet

See Also

SS_plots()