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Plot the total biomass of two models or of two different size ranges in the same plot

plot2TotalBiomass.Rd

When called with a MizerParams object the steady state biomasses are plotted.

Usage

plot2TotalBiomass(
  object1,
  object2,
  species = NULL,
  name1 = "First",
  name2 = "Second",
  min_fishing_l1 = NULL,
  max_fishing_l1 = NULL,
  min_fishing_l2 = NULL,
  max_fishing_l2 = NULL,
  stack = FALSE,
  return_data = FALSE,
  ...
)

plotly2TotalBiomass(object1, object2, species = NULL, ...)

Arguments

object1

First MizerParams or MizerSim object.

object2

Second MizerParams or MizerSim object.

species

The groups to be selected. Optional. By default all target groups are selected. A vector of groups names, or a numeric vector with the groups indices, or a logical vector indicating for each group whether it is to be selected (TRUE) or not.

name1

An optional string with the name for the first model, to be used in the legend. Set to "First" by default.

name2

An optional string with the name for the second model, to be used in the legend. Set to "Second" by default.

min_fishing_l1

Optional. The minimum length (cm) of fished individuals for model 2. Defaults to 7cm. A parameter passed to getProductivity().

max_fishing_l1

Optional. The maximum length (cm) of fished individuals for model 1. Defaults to max length. A parameter passed to getProductivity().

min_fishing_l2

Optional. The minimum length (cm) of fished individuals for model 2. Defaults to 7cm. A parameter passed to getProductivity().

max_fishing_l2

Optional. The maximum length (cm) of fished individuals for model 1. Defaults to max length. A parameter passed to getProductivity().

stack

A boolean value that determines whether bars are separated by species. Defaults to FALSE. If true, returns a stacked barplot with the total biomass for each group instead of individual bars for each group. Useful for comparison between steady states.

return_data

A boolean value that determines whether the formatted data used for the plot is returned instead of the plot itself. Default value is FALSE.

...

Arguments passed on to plotTotalBiomass

object

An object of class MizerParams

min_fishing_l

The minimum length (cm) for biomass estimates. Defaults to smallest size.

max_fishing_l

The maximum length (cm) of for biomass estimates. Defaults to max length.

Value

A ggplot2 object, unless return_data = TRUE, in which case a data frame with the the total steady state biomass for each functional group by model is returned as well as another column called rel_diffthat gives the relative difference between the two values.

See also

plotBiomass(), plot2TotalBiomass(), plotTotalBiomassRelative(), plotProductivity(), plot2Productivity(), plotProductivityRelative()

Other plotting functions: plot2Productivity(), plotBiomass(), plotProductivity(), plotProductivityRelative(), plotRefuge(), plotRelativeContribution(), plotSpectraRelative(), plotTotalAbundance(), plotTotalBiomass(), plotTotalBiomassRelative(), plotVulnerable()