SDMPlay

Species Distribution Modelling Playground

Functions provided by this pedagogic package allow to compute models with two popular machine learning approaches, BRT (Boosted Regression Trees) and MaxEnt (Maximum Entropy) applied on sets of marine biological and environmental data. They include the possibility of managing the main parameters for the construction of the models. Classic tools to evaluate model performance are provided (Area Under the Curve, omission rate and confusion matrix, map standard deviation) and are completed with tools to perform null models. The biological dataset includes original occurrences of two species of the class Echinoidea (sea urchins) present on the Kerguelen Plateau and that show contrasted ecological niches. The environmental dataset includes the corresponding statistics for 15 abiotic and biotic descriptors summarized for the Kerguelen Plateau and for different periods in a raster format. The package can be used for practicals to teach and learn the basics of species distribution modelling. Maps of potential distribution can be produced based on the example data included in the package, which brings prior observations of the influence of spatial and temporal heterogeneities on modelling performances. The user can also provide his own datasets to use the modelling functions.

Total

2,217

Last month

316

Last week

54

Average per day

11

Daily downloads

Total downloads

Description file content

Package
SDMPlay
Type
Package
Title
Species Distribution Modelling Playground
Version
1.2
Date
2016-08-03
Description
Functions provided by this pedagogic package allow to compute models with two popular machine learning approaches, BRT (Boosted Regression Trees) and MaxEnt (Maximum Entropy) applied on sets of marine biological and environmental data. They include the possibility of managing the main parameters for the construction of the models. Classic tools to evaluate model performance are provided (Area Under the Curve, omission rate and confusion matrix, map standard deviation) and are completed with tools to perform null models. The biological dataset includes original occurrences of two species of the class Echinoidea (sea urchins) present on the Kerguelen Plateau and that show contrasted ecological niches. The environmental dataset includes the corresponding statistics for 15 abiotic and biotic descriptors summarized for the Kerguelen Plateau and for different periods in a raster format. The package can be used for practicals to teach and learn the basics of species distribution modelling. Maps of potential distribution can be produced based on the example data included in the package, which brings prior observations of the influence of spatial and temporal heterogeneities on modelling performances. The user can also provide his own datasets to use the modelling functions.
License
GPL-3
LazyData
TRUE
Depends
R (>= 3.1.0)
Imports
raster, dismo, SDMTools, gbm, stats, base
Suggests
maptools, testthat, grDevices, rJava (>= 0.5-0), knitr, rmarkdown, ncdf4, rgdal, graphics, sp
RoxygenNote
6.0.1
VignetteBuilder
knitr
NeedsCompilation
no
Packaged
2017-10-11 08:10:32 UTC; charlene
Author
Guillaumot Charlene [aut, cre], Martin Alexis [aut], Eleaume Marc [aut], Saucede Thomas [aut]
Maintainer
Guillaumot Charlene
Repository
CRAN
Date/Publication
2017-10-11 10:26:50 UTC

install.packages('SDMPlay')

1.2

9 days ago

Guillaumot Charlene

GPL-3

Depends on

R (>= 3.1.0)

Imports

raster, dismo, SDMTools, gbm, stats, base

Suggests

maptools, testthat, grDevices, rJava (>= 0.5-0), knitr, rmarkdown, ncdf4, rgdal, graphics, sp

Discussions