EcoTroph: EcoTroph R package

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EcoTroph is an approach and software for modelling marine and freshwater ecosystems. It is articulated entirely around trophic levels. EcoTroph's key displays are bivariate plots, with trophic levels as the abscissa, and biomass flows or related quantities as ordinates. Thus, trophic ecosystem functioning can be modelled as a continuous flow of biomass surging up the food web, from lower to higher trophic levels, due to predation and ontogenic processes. Such an approach, wherein species as such disappear, may be viewed as the ultimate stage in the use of the trophic level metric for ecosystem modelling, providing a simplified but potentially useful caricature of ecosystem functioning and impacts of fishing. This version contains catch trophic spectrum analysis (CTSA) function and corrected versions of the mf.diagnosis and create.ETmain functions.

Author
J. Guitton, M. Colleter, P. Gatti, and D. Gascuel
Date of publication
2013-09-13 15:44:12
Maintainer
Jerome Guitton <jerome.guitton@agrocampus-ouest.fr>
License
GPL
Version
1.6
URLs

View on CRAN

Man pages

check.table
Check Ecopath table function
convert.list2tab
convert.list2tab
create.ETdiagnosis
ET-Diagnosis
create.ETmain
Create ET-Main (ET-Transpose routine)
create.smooth
Create Smooth Function
CTSA.catch.input
Catch input for CTSA
CTSA.forward
Catch Trophic Spectrum Analysis (CTSA) - Forward
ecopath_guinee
EcoTroph example dataset: Guinean data
E_MSY_0.1
E_MSY_0.1: Exploitation indices
plot.ETdiagnosis
Plot Diagnosis Function
plot_ETdiagnosis_isopleth
Diagnosis Isopleth Plot Function
plot.ETmain
Plot ET-Main
plot.smooth
Plot Smooth Function
plot.Transpose
Plot Transpose Function
read.ecopath.model
Input data import function (from an xml file)
saturation
Sigma Saturation Function
Transpose
ET Transpose Function

Files in this package

EcoTroph
EcoTroph/NAMESPACE
EcoTroph/data
EcoTroph/data/ecopath_guinee.rda
EcoTroph/R
EcoTroph/R/plot.Transpose.R
EcoTroph/R/create.smooth.R
EcoTroph/R/check.table.R
EcoTroph/R/create.ETmain.R
EcoTroph/R/plot.ETmain.R
EcoTroph/R/Transpose.R
EcoTroph/R/read.ecopath.model.R
EcoTroph/R/plot.smooth.R
EcoTroph/R/CTSA.forward.R
EcoTroph/R/plot_ETdiagnosis_isopleth.R
EcoTroph/R/convert.list2tab.R
EcoTroph/R/plot.ETdiagnosis.R
EcoTroph/R/create.ETdiagnosis.R
EcoTroph/R/mf.diagnosis.R
EcoTroph/R/CTSA.catch.input.R
EcoTroph/R/saturation.R
EcoTroph/R/sub.mf.R
EcoTroph/R/E_MSY_0.1.R
EcoTroph/MD5
EcoTroph/DESCRIPTION
EcoTroph/man
EcoTroph/man/Transpose.Rd
EcoTroph/man/create.ETdiagnosis.Rd
EcoTroph/man/ecopath_guinee.Rd
EcoTroph/man/create.smooth.Rd
EcoTroph/man/read.ecopath.model.Rd
EcoTroph/man/CTSA.forward.Rd
EcoTroph/man/CTSA.catch.input.Rd
EcoTroph/man/plot.ETdiagnosis.Rd
EcoTroph/man/plot.ETmain.Rd
EcoTroph/man/E_MSY_0.1.Rd
EcoTroph/man/saturation.Rd
EcoTroph/man/check.table.Rd
EcoTroph/man/convert.list2tab.Rd
EcoTroph/man/plot.smooth.Rd
EcoTroph/man/create.ETmain.Rd
EcoTroph/man/plot.Transpose.Rd
EcoTroph/man/plot_ETdiagnosis_isopleth.Rd
EcoTroph/CHANGES