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webSDM (version 1.1-5)

Including Known Interactions in Species Distribution Models

Description

A collection of tools to fit and work with trophic Species Distribution Models. Trophic Species Distribution Models combine knowledge of trophic interactions with Bayesian structural equation models that model each species as a function of its prey (or predators) and environmental conditions. It exploits the topological ordering of the known trophic interaction network to predict species distribution in space and/or time, where the prey (or predator) distribution is unavailable. The method implemented by the package is described in Poggiato, Andréoletti, Pollock and Thuiller (2022) .

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Install

install.packages('webSDM')

Monthly Downloads

128

Version

1.1-5

License

GPL-3

Issues

Pull Requests

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Maintainer

Giovanni Poggiato

Last Published

June 24th, 2024

Functions in webSDM (1.1-5)

loo.trophicSDMfit

Computes an approximation of loo for the whole model
plotG_inferred

Plot the metaweb G according to the inferred coefficients
webSDM-package

webSDM: Including Known Interactions in Species Distribution Models
predictPotential

Predicts species potential niche
trophicSDM_CV

Compute K-fold cross-validation predicted values from a fitted trophicSDM model
trophicSDM

Fitting a trophic Species distribution model
predict.SDMfit

Predicts with a local model
summary.SDMfit

Summary of a fitted SDMfit model
plot.SDMfit

Plots the regression coefficients of a local model
coef.trophicSDMfit

Gets regression coefficients from a fitted trophicSDM model.
computeVariableImportance

Computes variable importance of (groups of) variables of fitted a trophicSDM model.
summary.trophicSDMfit

Summary of a fitted trophicSDM model
SDMfit

Fitting a single-species SDM
print.SDMfit

Prints a SDMfit object
print.trophicSDMfit

Prints a fitted trophicSDM model
buildFormula

Builds SDM formulae
G

Simulated environemntal covariates G
coef.SDMfit

Gets regression coefficients from a local model, i.e. a SDMfit object.
global

Global
evaluateModelFit

Evaluates prediction goodness of fit
X

Simulated environmental covariates X
plot.trophicSDMfit

Plots the regression coefficients of a fitted trophicSDM model
Y

Simulated species distribution Y
plotG

Plots the metaweb G
predict.trophicSDMfit

Computes predicted values from the fitted trophicSDMfit model