Prepare Data

Function to prepare data for SDMsel analysis

addSamplesToBg()

Add Samples to Background

prepareSWD()

Prepare an SWD object

randomFolds()

Create Random Folds

thinData()

Thin Data

trainValTest()

Train, Validation and Test datasets

Modeling

Function to train the model and get information from the model

getTunableArgs()

Get Tunable Arguments

modelReport()

Model Report

maxentTh()

MaxEnt Thresholds

maxentVarImp()

Maxent Variable Importance

predict(<ANN>)

Predict ANN

predict(<BRT>)

Predict BRT

predict(<Maxent>)

Predict Maxent

predict(<RF>)

Predict RF

predict(<SDMmodel>)

Predict

predict(<SDMmodelCV>)

Predict for Cross Validation

train()

Train

thresholds()

Thresholds

varImp()

Variable Importance

Evaluating

Function to evaluate the model

aicc()

AICc

auc()

AUC

confMatrix()

Confusion Matrix

doJk()

Jackknife Test

tss()

True Skill Statistics

Data-driven Variable selection

Function to perform Data-driven Variable selection

corVar()

Print Correlated Variables

reduceVar()

Reduce Variables

varSel()

Variable Selection

Plot

Function to plot results

plotCor()

Plot Correlation

plotJk()

Plot Jackknife Test

plot(<SDMtune>,<missing>)

Plot SDMtune object

plotPA()

Plot Presence Absence Map

plotPred()

Plot Prediction

plotResponse()

Plot Response Curve

plotROC()

Plot ROC curve

plotVarImp()

Plot Variable Importance

Tune

Function for model tuning and optimization

gridSearch()

Grid Search

optimizeModel()

Optimize Model

randomSearch()

Random Search

Utilities

Some utility functions

checkMaxentInstallation()

Check Maxent Installation

mergeSWD()

Merge SWD Objects

SDMmodel2MaxEnt()

SDMmodel2MaxEnt

swd2csv()

SWD to csv

Dataset

Dataset provided with the package

virtualSp

Virtual Species

Classes

Package classes

ANN-class

Artificial Neural Network

BRT-class

Boosted Regression Tree

Maxent-class

Maxent

Maxnet-class

Maxnet

RF-class

Random Forest

SDMmodel-class

SDMmodel

SDMmodelCV-class

SDMmodelCV

SDMtune-class

SDMtune class

SWD-class

Sample With Data