PlotBioStrata.fn: Plots the design-based biomass estimates by strata with...
In nwfsc-assess/nwfscSurvey: Northwest Fisheries Science Center Survey

PlotBioStrata.fn

R Documentation

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

Description

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