SSDM: SSDM: Stacked species distribution modelling

Description

SSDM is a package to map species richness and endemism based on Stacked Species Distribution Models (SSDM). It provides tools to build SDM, i.e. a single species fitted with a single algorithm, Ensemble SDM (ESDM), i.e. a single species fitted with multiple algorithms, SSDM several species with one or more algorithms. The package includes numerous modelling algorithms, and specifiable ensemble aggregating and stacking methods. This package also provides tools to evaluate and explore models such as variable importance, algorithm accuracy, and between-algorithm correlation, and tools to map results such as habitat suitability maps, binary maps, between-algorithm variance maps. For ease of use, the SSDM package provides a user-friendly graphical interface (gui).

Arguments

Data preparation

load_var: Load environmental variables

Modelling main functions

modelling: Build an SDM using a single algorithm
ensemble_modelling: Build an SDM that assembles multiple algorithms
stack_modelling: Build an SSDMs that assembles multiple algorithms and species

Model main methods

ensemble,Algorithm.SDM-method: Build an ensemble SDM
stacking,Ensemble.SDM-method: Build an SSDM
update,Stacked.SDM-method: Update a previous SSDM with new occurrence data

Model classes

Algorithm.SDM: S4 class to represent SDMs
Ensemble.SDM: S4 class to represent ensemble SDMs
Stacked.SDM: S4 class to represent SSDMs

Miscellaneous

gui: User-friendly interface for SSDM package
plot.model: Plot SDMs
save.model: Save SDMs
load.model: Load SDMs

Author

Maintainer: Sylvain Schmitt sylvain.m.schmitt@gmail.com

Authors:

Robin Pouteau
Dimitri Justeau
Florian de Boissieu
Lukas Baumbach
Philippe Birnbaum

Details

The SSDM package provides five categories of functions (that you can find in details below): Data preparation, Modelling main functions, Model main methods, Model classes, and Miscellaneous.