plotM2: Alias for 'plotPredMort()'

In sizespectrum/mizer: Dynamic Multi-Species Size Spectrum Modelling

Alias for plotPredMort()

Description

An alias provided for backward compatibility with mizer version <= 1.0

Usage

plotM2(
  object,
  species = NULL,
  time_range,
  all.sizes = FALSE,
  highlight = NULL,
  return_data = FALSE,
  ...
)

Arguments

object	An object of class MizerSim or MizerParams.
species	The species to be selected. Optional. By default all target species are selected. A vector of species names, or a numeric vector with the species indices, or a logical vector indicating for each species whether it is to be selected (TRUE) or not.
time_range	The time range (either a vector of values, a vector of min and max time, or a single value) to average the abundances over. Default is the final time step. Ignored when called with a MizerParams object.
all.sizes	If TRUE, then predation mortality is plotted also for sizes outside a species' size range. Default FALSE.
highlight	Name or vector of names of the species to be highlighted.
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
...	Other arguments (currently unused)

Value

A ggplot2 object, unless return_data = TRUE, in which case a data frame with the three variables 'w', 'value', 'Species' is returned.

See Also

plotting_functions, getPredMort()

Other plotting functions: animateSpectra(), plot,MizerSim,missing-method, plotBiomass(), plotDiet(), plotFMort(), plotFeedingLevel(), plotGrowthCurves(), plotSpectra(), plotYield(), plotYieldGear(), plotting_functions

Examples

params <-  NS_params
sim <- project(params, effort=1, t_max=20, t_save = 2, progress_bar = FALSE)
plotPredMort(sim)
plotPredMort(sim, time_range = 10:20)

# Returning the data frame
fr <- plotPredMort(sim, return_data = TRUE)
str(fr)

sizespectrum/mizer documentation built on April 14, 2024, 3:08 a.m.