A projection by projection plot of F/FMSY, B/BMSY, B/B0, and yield

Usage

Pplot2(
  MSEobj,
  YVar = c("F_FMSY", "SSB_SSBMSY"),
  MPs = NA,
  sims = NULL,
  traj = c("all", "quant", "both"),
  quants = c(0.1, 0.9),
  incquant = TRUE,
  quantcol = "lightgray",
  RefYield = c("lto", "curr"),
  LastYr = TRUE,
  ref.lines = c(0.5, 1, 1.5),
  maxMP = 6,
  alpha = 60,
  cex.axis = 1,
  cex.lab = 1,
  YLab = NULL,
  incMP = TRUE,
  MPcex = 1,
  MPcol = "black",
  incLeg = TRUE,
  cex.leg = 1.5,
  legPos = "topleft",
  yline = NULL,
  xline = NULL,
  parOR = FALSE,
  xaxis = TRUE,
  yaxis = TRUE,
  oneIt = TRUE,
  ...
)

Arguments

MSEobj: An object of class MSE
YVar: What to plot on the y-axis? Options are: c('SSB_SSB0', 'SSB_SSBMSY', 'F_FMSY', 'Yield')
MPs: Optional subset by MP
sims: Optional subset by simulation
traj: Plot all projections (all), only quantiles (quant), or both projections and median (both)
quants: Numeric vector of length 2 specifying the quantiles (e.g., 10th and 90th. Median is always included)
incquant: Logical. Include the quantiles or only plot median?
quantcol: Colour of the quantile polygon
RefYield: Should yield be relative to long-term optimum (lto) or last historical year (curr)
LastYr: Logical. Include the last historical year in the yield projections?
ref.lines: Numeric vector of y-values for horizontal reference lines. Set to NULL to remove lines.
maxMP: Maximum number of MPs to plot
alpha: Alpha for transparency of lines
cex.axis: Size of axis text
cex.lab: Size of axis label
YLab: Optional label for y-axis
incMP: Logical. Include name of MP?
MPcex: Size of MP label
MPcol: Optional character vector of colors for MP labels
incLeg: Logical. Include a legend?
cex.leg: Size of legend text
legPos: Legend position
yline: Optional horizontal lines
xline: Optional vertical lines
parOR: Logical to over-ride the par parameters
xaxis: Logical. Should x-axis labels be displayed?
yaxis: Logical. Should y-axis labels be displayed?
oneIt: Logical. Should one iteration be plotted on the quantile plot?
...: Additional arguments to be passed to plotting functions

Author

T. Carruthers & A.Hordyk