create.ETmain {EcoTroph}R Documentation

Create ET Main

Description

This function enables the creation of the ET Main table (summarizing the principal results in function of the TL).

Usage

create.ETmain(ecopath, sigmaLN = NULL, pas = NULL, decalage = NULL, smooth = NULL)

Arguments

ecopath is the table returned by the Ecopath routine. The different varaiables are the group name, its trophic level, biomass, production and consumption ratio, catches, omnivory index and accessibility (fraction of the group that can be catch supposing an infinite fishing effort).
sigmaLN is a parameter of the create.smooth function. It defines the sigma of the lognormal distribution. By default sigmaLN=0.12. For sigmaLN="smooth_choice", sigmaLN=smooth*ln(TL-0.05).
pas is a parameter of the create.smooth function. It defines the splitting of the TL classes.
decalage is a parameter of the create.smooth function. It defines the beginning of the smooth function and allows the substraction of 0.05 in the sigma calculation accounting for the half interval range of the trophic class.
smooth is a parameter of the create.smooth function. It defines the slope of the log-linearly increase of the TL variability with the mean trophic level of the group for sigmaLN="smooth_choice". Sigma(TL) is thus defined as sigma(TL)=smooth*ln(TL-0.05).

Value

This function returns the ET Main table and some intermediate matrix : biomass, accessible biomass, flowP and a list of matrix corresponding to the catch of the different fisheries.

Author(s)

Colleter Mathieu and Guitton Jerome.

References

Gascuel et al. (2009) EcoTroph (ET): a trophic level based software for assessing the impacts of fishing on aquatic ecosystems.

See Also

create.smooth function to create the Smooth, plot.smooth.R to plot the smooth function, Transpose.R to calculate the data transposition into trophic spectra, plot.Transpose.R to plot the trophic spectra.

Examples

data(ecopath_guinee)
create.ETmain(ecopath_guinee)
create.ETmain(ecopath_guinee,sigmaLN="smooth_choice")
create.ETmain(ecopath_guinee, sigmaLN=ecopath_guinee$OI)

[Package EcoTroph version 1.1 Index]