evaluate: Evaluate

In hugocalcad/LigthSSDM: Optimized SSDM Package for large dataset

Description

Evaluation of SDM or ESDM habitat suitability predictions or evalaution of SSDM floristic composition with Pottier et al, 2013 method (see reference below)

Usage

evaluate(obj, ...)

## S4 method for signature 'Algorithm.SDM'
evaluate(obj, cv, cv.param, thresh = 1001,
  metric = "SES", Env, ...)

## S4 method for signature 'MAXENT.SDM'
evaluate(obj, cv, cv.param, thresh = 1001,
  metric = "SES", Env, ...)

## S4 method for signature 'Stacked.SDM'
evaluate(obj, ...)

Arguments

obj	Stacked.SDM. SSDM to evaluate
...	unused argument
cv	character. Method of cross-validation used to evaluate the SDM (see details below).
cv.param	numeric. Parameters associated to the method of cross-validation used to evaluate the SDM (see details below).
thresh	numeric. A single integer value representing the number of equal interval threshold values between 0 and 1 (see optim.thresh).
metric	character. Metric(s) used to select the best SDMs that will be included in the ensemble SDM (see details below).
Env	raster object. Stacked raster object of environmental variables (can be processed first by load_var).

Value

SDM/ESDM/SSDM evaluation in a data.frame

References

Pottier, J., Dubuis, A., Pellissier, L., Maiorano, L., Rossier, L., Randin, C. F., Guisan, A. (2013). The accuracy of plant assemblage prediction from species distribution models varies along environmental gradients. Global Ecology and Biogeography, 22(1), 52-63. https://doi.org/10.1111/j.1466-8238.2012.00790.x

Examples

## Not run: 
# Loading data
data(Env)
data(Occurrences)
# SSDM building
SSDM <- stack_modelling(c('CTA', 'SVM'), Occurrences, Env, rep = 1,
                       Xcol = 'LONGITUDE', Ycol = 'LATITUDE',
                       Spcol = 'SPECIES')

# Evaluation
evaluate(SSDM)


## End(Not run)

hugocalcad/LigthSSDM documentation built on June 22, 2019, 12:43 a.m.