After running a projection, the total yield of each species across all
fishing gears can be plotted against time. The yield is obtained with
getYield().
Usage
plotYield(
sim,
sim2,
species = NULL,
total = FALSE,
log = TRUE,
highlight = NULL,
return_data = FALSE,
...
)
plotlyYield(
sim,
sim2,
species = NULL,
total = FALSE,
log = TRUE,
highlight = NULL,
...
)Arguments
- sim
An object of class MizerSim
- sim2
An optional second object of class MizerSim. If this is provided its yields will be shown on the same plot in bolder lines.
- 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.
- total
A boolean value that determines whether the total over all species in the system is plotted as well. Note that even if the plot only shows a selection of species, the total is including all species. Default is FALSE.
- log
Boolean whether yield should be plotted on a logarithmic axis. Defaults to true.
- 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 'Year', 'Yield', 'Species' is returned.
See also
plotting_functions, getYield()
Other plotting functions:
animateSpectra(),
plot,MizerSim,missing-method,
plotBiomass(),
plotDiet(),
plotFMort(),
plotFeedingLevel(),
plotGrowthCurves(),
plotPredMort(),
plotSpectra(),
plotYieldGear(),
plotting_functions
Examples
# \donttest{
params <- NS_params
sim <- project(params, effort = 1, t_max = 20, t_save = 0.2, progress_bar = FALSE)
plotYield(sim)
plotYield(sim, species = c("Cod", "Herring"), total = TRUE)
# Comparing with yield from twice the effort
sim2 <- project(params, effort=2, t_max=20, t_save = 0.2, progress_bar = FALSE)
plotYield(sim, sim2, species = c("Cod", "Herring"), log = FALSE)
# Returning the data frame
fr <- plotYield(sim, return_data = TRUE)
str(fr)
#> 'data.frame': 1212 obs. of 3 variables:
#> $ Year : num 0 0.2 0.4 0.6 0.8 1 1.2 1.4 1.6 1.8 ...
#> $ Yield : num 2.21e+11 1.86e+11 1.60e+11 1.42e+11 1.30e+11 ...
#> $ Species: Factor w/ 12 levels "Sprat","Sandeel",..: 1 1 1 1 1 1 1 1 1 1 ...
# }