Function reference version 0.2

All functions

addInteraction

Set up interactions among covariates

AddRandomUniformPredictors

Process module: AddRandomUniformPredictors

AirNCEP

Covariate module: AirNCEP

AnophelesPlumbeus

Occurrence module: AnophelesPlumbeus

Appify

Appify

Background

Process module: Background

BackgroundAndCrossvalid

Process module: BackgroundAndCrossvalid

Bioclim_future

Covariate module: Bioclim_future

Bioclim

Covariate module: Bioclim

BiomodModel

Model module: BiomodModel

Bootstrap

Process module: Boostrap

CarolinaWrenPA

Presence/absence data for the Carolina Wren in the USA

CarolinaWrenPO

Presence-only data for the Carolina Wren in the USA

CarolinaWrenRasters

Covariate rasters for the USA used in the Carolina Wren analysis

Clean

Process module: Clean

Crossvalidate

Process module: Crossvalidate

CWBZimbabwe

Occurrence module: coffee white stem borer surveys in Zimbabwe

GBM

Model module: GBM

InteractiveCovariateMap

Output module: InteractiveCovariateMap

InteractiveMap

Output module: InteractiveMap

JitterOccurrence

Add noise to occurrence coordinates

LocalOccurrenceData

Occurrence module: LocalOccurrenceData

LocalRaster

Covariate module: LocalRaster

LogisticRegression

Model module: LogisticRegression

Lorem_ipsum_UK

A dataset of Lorem ipsum occurrences

MachineLearn

Model module: MachineLearn

MaxEnt

Model module: MaxEnt

MaxLike

Model module: MaxLike

MESSMask

Process module: MESSMask

mgcv

Model module: mgcv

MyMaxLike

Model module: MyMaxLike

NaiveRandomPresence

Naive Random Presence

NaiveRandomPresenceAbsence

Naive Random Presence/Absence

NaiveRandomRaster

Naive Random Raster

NATrees

Occurrences for 21 tree species from North America

NBNdataByName

NBN Data by Common Name

NCEP

Covariate module: NCEP

NoOutput

Do not create any output

NoProcess

Process module: NoProcess

OneHundredBackground

Process module: OneHundredBackground

OneThousandBackground

Process module: OneThousandBackground

OptGRaF

Model module: OptGRaF

PartitionDisc

PartitionDisc: Leave-one-disc-out cross-validation

PerformanceMeasures

Output module: PerformanceMeasures

PredictNewRasterMap

Output module: PredictNewRasterMap

PrintMap

Output module: PrintMap

QuickGRaF

Model module: QuickGRaF

RandomForest

Model module: RandomForest

ResponseCurve

Output module: ResponseCurve

ResponseCurveViz

Conditional Plots

ROCcurve

an ROC-curve with the AUC value plotted in the title

SameTimePlaceMap

Output module: SameTimePlaceMap

SeparatePA

two graphs showing the probabilies for presence and absence points

SpOcc

Occurrence module: SpOcc

StandardiseCov

Scale numeric covariates

StochasticLogisticRegression

StochasticLogisticRegression

SugarMaple

Sugar Maple distribution in North America

SurfaceMap

Output module: SurfaceMap

TargetGroupBackground

Target Group Background Data

Transform

Apply Transformations to Covariates

UKAir

Covariate module: UKAir

UKAnophelesPlumbeus

Occurrence module: UK Anopheles plumbeus data

UKBioclim

Covariate module: UKBioclim

VariableImportance

Variable Importance