Bigboss pre-defined parameter values for single models

A BIOMOD.models.options object containing for each single model available in biomod2 the parameter values pre-defined by biomod2 team.

OptionsBigboss

Format

A BIOMOD.models.options object with some changed values :

ANN.nnet.nnet

• size = 5

• decay = 0.1

• trace = FALSE

• rang = 0.1

• maxit = 200

CTA.rpart.rpart

• control = list(xval = 5, minbucket = 5, minsplit = 5, cp = 0.001, maxdepth = 10)

• cost = NULL

FDA.mda.fda

GAM.gam.gam

GAM.mgcv.bam

GAM.mgcv.gam

• method = 'GCV.Cp'

• control = list(epsilon = 1e-06, trace = FALSE, maxit = 100)

GBM.gbm.gbm

• n.trees = 2500

• interaction.depth = 7

• n.minobsinnode = 5

• shrinkage = 0.001

• cv.folds = 3

• keep.data = FALSE

• n.cores = 1

GLM.stats.glm

• mustart = 0.5

• control = glm.control(maxit = 50)

MARS.earth.earth

• ncross = 0

• nk = NULL

• penalty = 2

• thresh = 0.001

• nprune = NULL

• pmethod = 'backward'

MAXENT.MAXENT.MAXENT

• path_to_maxent.jar = '.'

RF.randomForest.randomForest

• ntree = 500

• mtry = 2

• sampsize = NULL

• nodesize = 5

• maxnodes = NULL

RFd.randomForest.randomForest

• type = 'classification'

• ntree = 500

• mtry = 2

• strata = factor(c(0, 1))

• sampsize = NULL

• nodesize = 5

• maxnodes = NULL

SRE.biomod2.bm_SRE

• do.extrem = TRUE

XGBOOST.xgboost.xgboost

• params = list(max_depth = 2, eta = 1)

• nthread = 2

• nrounds = 4