plot_ETdiagnosis_isopleth: This function enables to plot the mixed impacts of changes in...

In EcoTroph: An Implementation of the EcoTroph Ecosystem Modelling Approach

This function enables to plot the mixed impacts of changes in fishing effort for two fleets (or groups of fleets).

Description

This function enables to plot the mixed impacts of changes in fishing effort for two fleets (or groups of fleets).

Usage

plot_ETdiagnosis_isopleth(
  x,
  fleet1 = NULL,
  fleet2 = NULL,
  var = NULL,
  n.level = NULL,
  relative = NULL,
  name.fleet1 = NULL,
  name.fleet2 = NULL,
  color = NULL,
  ask = interactive()
)

Arguments

x	is the list object returned by the create.ETdiagnosis function.
fleet1	is a character vector of fleets for which fishing efforts are equally changed.
fleet2	is a second character vector of fleets for which fishing efforts are equally changed. Fishing efforts remain unchanged for fleets not assigned in fleet1 or fleet2. If fleet2 is NULL, all fleets not assigned in fleet1 are assigned in fleet2. If the argument 'fleet.of.interest' has been assigned in the function create.ETdiagnosis, fleet1=fleet.of.interest and thus fleet2 is composed of the remaining fleet(s) (not assigned in fleet.of.interest).
var	is a character vector of plotted variables (TOT_biomass,TOT_biomass_acc,Y,Y_fleet1,Y_fleet2,TL_TOT_biomass,TL_TOT_biomass_acc,TL_Y,TL_Y_fleet1,TL_Y_fleet2).All the variables are plotted by default.
n.level	is a numeric string, specifying the number of plotted isopleth areas (7 is the default value).
relative	is a logical string (by default relative=F), specifying if the variables have to be plotted in absolute or relative values (in comparison with reference state, Mul_eff=1). Note that if relative=TRUE, mean trophic level in biomass or catches (TL_TOT_biomass,TL_Y,...) are not plotted.
name.fleet1	is a character string used to implement x-axis name. By default name.fleet1='fleet 1'.
name.fleet2	is a character string used to implement y-axis name. By default name.fleet2='fleet 2'. If the argument fleet.of.interest has been assigned in the function create.ETdiagnosis, name.fleet1 = 'fleet of interest' and name.fleet2 = 'other fleets'.
color	is a vector of colors, the length of this vector should be equal to the value of levels. By default, color=rainbow(n=levels).
ask	default value is interactive. Parameter used to enable the user to control the display of each graph.

Details

Fleets' names used in the arguments 'fleet1' and 'fleet2' are the catch column names of ecopath input dataframe (e.g. 'catch.1' or 'catch.ind').

Examples

#data(ecopath_guinee)
#diagn.list=create.ETdiagnosis(create.ETmain(ecopath_guinee))
#plot_ETdiagnosis_isopleth(diagn.list,fleet1='catch.1',fleet2='catch.2')
#plot_ETdiagnosis_isopleth(diagn.list,fleet1='catch.1',fleet2='catch.2',relative=TRUE)

EcoTroph documentation built on April 13, 2022, 5:27 p.m.