Plots the design-based biomass estimates by strata with confidence intervals

Usage

PlotBioStrata.fn(
  dir = NULL,
  dat,
  CI = 0.95,
  scalar = 1e+06,
  gap = 0.03,
  ylab = "Biomass ('000 mt)",
  xlab = "Year",
  survey.name = NULL,
  strata.names = NULL,
  ylim = NULL,
  sameylim = FALSE,
  add = FALSE,
  mfrow.in = NULL,
  col = "black",
  pch.col = "black",
  pch.type = 16,
  dopng = lifecycle::deprecated(),
  ...
)

Arguments

dir: Directory where output will be saved. The directory where the file should be saved. If dir = NULL no output will be saved.
dat: Data frame created by the Biomass.fn()
CI: A numerical value that specifies the confidence interval to return. Values should be between 0.01 to 0.99.
scalar: simply the divisor for the biomass
gap: a value that introduces a slight gap between the point estimate and the start of the line for the CI. A gap too large will invert the CI, making it look huge. You should know when this happens
ylab: y-axis text label
xlab: x-axis text label
survey.name: if specified will name the output png file using this name
strata.names: custom strata names, if not specified will use the defined names from CreateStrataDF.fn()
ylim: y-limits
sameylim: Boolean, whether to include same y-limits or not. Defaults to FALSE
add: add additional line to plot
mfrow.in: option to specify the mfrow for plotting
col: color
pch.col: Color as string, defaults to "black"
pch.type: Numeric pch type, defaults to 16
dopng: Deprecated with nwfscSurvey 2.1 because providing a non-NULL value to dir can serve the same purpose as dopng = TRUE without the potential for errors when dopng = TRUE and dir = NULL. Thus, users no longer have to specify dopng to save the plot as a png.
...: Additional arguments for the plots

Author

Chantel Wetzel, Allan Hicks, and John Wallace