API for biomodhub/biomod2
Ensemble Platform for Species Distribution Modeling

Global functions
.BIOMOD_EnsembleForecasting.check.args Source code
.BIOMOD_EnsembleModeling.check.args Source code
.BIOMOD_FormatingData.check.args Source code
.BIOMOD_LoadModels.check.args Source code
.BIOMOD_Projection.check.args Source code
.BIOMOD_RangeSize.check.args Source code
.Biomod.Models.check Source code
.Biomod.Models.loop Source code
.CV.nnet Source code
.CleverCut Source code
.Construct.default.biomod2.modeling.obj Source code
.Delete.Maxent.WorkDir Source code
.Models.check.EF.args Source code
.Models.check.args Source code
.Models.dependencies Source code
.Models.prepare.data Man page
.Models.prepare.data,BIOMOD.formated.data-method Man page
.Models.prepare.data,BIOMOD.formated.data.PA-method Man page
.Models.prepare.workdir Source code
.Models.print.modeling.summary Source code
.Prepare.Maxent.WorkDir Source code
.ProbDensFunc.checkArgs Source code
.Projection.do.proj Man page
.Projection.do.proj,ANY,RasterStack-method Man page
.Projection.do.proj,ANY,data.frame-method Man page
.Rescaler5 Source code
.SampleMat Source code
.add_PA_rownames Source code
.as.ggdat.2D Source code
.automatic_weights_creation Source code
.bmCat Source code
.build.clamping.mask Source code
.check.java.installed Source code
.check.params.pseudo.absences.sampling Source code
.check.params.sre Source code
.contagency.table.check Source code
.create.maxent.bg.dir Source code
.em.models.assembling Source code
.evaluate.biomod2.ensemble.models.out Source code
.evaluate.biomod2.formal.models Source code
.evaluate.biomod2.models.out Source code
.get.nb.true.abs Source code
.get_needed_predictions Source code
.guess.scale Source code
.models_scores_graph_check_args Source code
.nb.available.pa.cells Source code
.onAttach Source code
.predict.ANN_biomod2_model.RasterStack Source code
.predict.ANN_biomod2_model.data.frame Source code
.predict.CTA_biomod2_model.RasterStack Source code
.predict.CTA_biomod2_model.data.frame Source code
.predict.EMca_biomod2_model.RasterStack Source code
.predict.EMca_biomod2_model.data.frame Source code
.predict.EMci_biomod2_model.RasterStack Source code
.predict.EMci_biomod2_model.data.frame Source code
.predict.EMcv_biomod2_model.RasterStack Source code
.predict.EMcv_biomod2_model.data.frame Source code
.predict.EMmean_biomod2_model.RasterStack Source code
.predict.EMmean_biomod2_model.data.frame Source code
.predict.EMmedian_biomod2_model.RasterStack Source code
.predict.EMmedian_biomod2_model.data.frame Source code
.predict.EMwmean_biomod2_model.RasterStack Source code
.predict.EMwmean_biomod2_model.data.frame Source code
.predict.FDA_biomod2_model.RasterStack Source code
.predict.FDA_biomod2_model.data.frame Source code
.predict.GAM_biomod2_model.RasterStack Source code
.predict.GAM_biomod2_model.data.frame Source code
.predict.GBM_biomod2_model.RasterStack Source code
.predict.GBM_biomod2_model.data.frame Source code
.predict.GLM_biomod2_model.RasterStack Source code
.predict.GLM_biomod2_model.data.frame Source code
.predict.MARS_biomod2_model.RasterStack Source code
.predict.MARS_biomod2_model.data.frame Source code
.predict.MAXENT.Phillips.2_biomod2_model.RasterStack Source code
.predict.MAXENT.Phillips.2_biomod2_model.data.frame Source code
.predict.MAXENT.Phillips_biomod2_model.RasterStack Source code
.predict.MAXENT.Phillips_biomod2_model.data.frame Source code
.predict.RF_biomod2_model.RasterStack Source code
.predict.RF_biomod2_model.data.frame Source code
.predict.SRE_biomod2_model.RasterStack Source code
.predict.SRE_biomod2_model.data.frame Source code
.print.control Source code
.pseudo.absences.sampling Source code
.rand.pseudo.abs.selection Source code
.response.plot2.check.arg Source code
.sample.factor.levels.data.frame Source code
.sample.factor.levels.data.frame.old Source code
.sample.factor.levels.raster Source code
.scaling_model Source code
.scope Source code
.scopeExpSyst Source code
.sre.projection Source code
.testnull Source code
.transform.outputs Man page
.transform.outputs,array-method Man page
.transform.outputs,list-method Man page
.transform.outputs.array Man page Source code
.transform.outputs.list Man page Source code
.variables_importance.check.args Source code
ANN_biomod2_model Man page
ANN_biomod2_model-class Man page
BIOMOD.EnsembleModeling.out-class Man page
BIOMOD.EnsembleModeling.out-method Man page
BIOMOD.Model.Options-class Man page
BIOMOD.Model.Options-method Man page
BIOMOD.formated.data Man page
BIOMOD.formated.data,data.frame,ANY-method Man page
BIOMOD.formated.data,numeric,RasterStack-method Man page
BIOMOD.formated.data,numeric,data.frame-method Man page
BIOMOD.formated.data,numeric,matrix-method Man page
BIOMOD.formated.data-class Man page
BIOMOD.formated.data.PA Man page Source code
BIOMOD.formated.data.PA-class Man page
BIOMOD.models.out-RemoveProperly Man page
BIOMOD.models.out-class Man page
BIOMOD.projection.out Man page
BIOMOD.projection.out-class Man page
BIOMOD.stored.array Man page
BIOMOD.stored.array-class Man page
BIOMOD.stored.data Man page
BIOMOD.stored.data-class Man page
BIOMOD.stored.data.frame Man page
BIOMOD.stored.data.frame-class Man page
BIOMOD.stored.files Man page
BIOMOD.stored.files-class Man page
BIOMOD.stored.formated.data Man page
BIOMOD.stored.formated.data-class Man page
BIOMOD.stored.models.options Man page
BIOMOD.stored.models.options-class Man page
BIOMOD.stored.models.out Man page
BIOMOD.stored.models.out-class Man page
BIOMOD.stored.raster.stack Man page
BIOMOD.stored.raster.stack-class Man page
BIOMOD_ConvertOldRun Man page Source code
BIOMOD_EnsembleForecasting Man page
BIOMOD_EnsembleModeling Man page
BIOMOD_FormatingData Man page
BIOMOD_LoadModels Man page Source code
BIOMOD_Modeling Man page Source code
BIOMOD_ModelingOptions Man page
BIOMOD_Projection Man page
BIOMOD_RangeSize Man page
BIOMOD_RangeSize,RasterLayer,RasterLayer-method Man page
BIOMOD_RangeSize,RasterLayer,RasterStack-method Man page
BIOMOD_RangeSize,RasterStack,RasterStack-method Man page
BIOMOD_RangeSize,array,array-method Man page
BIOMOD_RangeSize,data.frame,data.frame-method Man page
BIOMOD_RangeSize-methods Man page
BIOMOD_cv Man page
BIOMOD_presenceonly Man page Source code
BIOMOD_tuning Man page Source code
BinaryTransformation Man page
BinaryTransformation, Man page
BinaryTransformation,RasterBrick-method Man page
BinaryTransformation,RasterLayer-method Man page
BinaryTransformation,RasterStack-method Man page
BinaryTransformation,array-method Man page
BinaryTransformation,data.frame-method Man page
BinaryTransformation,matrix-method Man page
BinaryTransformation,numeric-method Man page
CTA_biomod2_model Man page
CTA_biomod2_model-class Man page
CustomIndexMaker Man page
DF_to_ARRAY Man page Source code
EMca_biomod2_model Man page
EMca_biomod2_model-class Man page
EMci_biomod2_model Man page
EMci_biomod2_model-class Man page
EMcv_biomod2_model Man page
EMcv_biomod2_model-class Man page
EMmean_biomod2_model Man page
EMmean_biomod2_model-class Man page
EMmedian_biomod2_model Man page
EMmedian_biomod2_model-class Man page
EMwmean_biomod2_model Man page
EMwmean_biomod2_model-class Man page
FDA_biomod2_model Man page
FDA_biomod2_model-class Man page
FilteringTransformation Man page
Find.Optim.Stat Man page Source code
GAM_biomod2_model Man page
GAM_biomod2_model-class Man page
GBM_biomod2_model Man page
GBM_biomod2_model-class Man page
GLM_biomod2_model Man page
GLM_biomod2_model-class Man page
LIST_to_ARRAY Man page Source code
MARS_biomod2_model Man page
MARS_biomod2_model-class Man page
MAXENT.Phillips.2_biomod2_model Man page
MAXENT.Phillips.2_biomod2_model-class Man page
MAXENT.Phillips_biomod2_model Man page
MAXENT.Phillips_biomod2_model-class Man page
MAXENT.Tsuruoka_biomod2_model Man page
MAXENT.Tsuruoka_biomod2_model-class Man page
Print_Default_ModelingOptions Man page Source code
ProbDensFunc Man page Source code
Projection Man page
Projection,ANY,ANY,RasterStack-method Man page
Projection,ANY,ANY,data.frame-method Man page
RF_biomod2_model Man page
RF_biomod2_model-class Man page
RasterBrick-method Man page
RasterLayer-method Man page
RasterStack-method Man page
RemoveProperly Man page
SRE_biomod2_model Man page
SRE_biomod2_model-class Man page
SampleMat2 Man page Source code
`.functionkeep` Source code
`.scope2` Source code
`level.plot` Source code
`multiple.plot` Source code
array-method Man page
biomod2 Man page
biomod2-package Man page
biomod2_ensemble_model Man page
biomod2_ensemble_model-class Man page
biomod2_model Man page
biomod2_model-class Man page
calculate.stat Man page Source code
cat_formula Source code
check_data_range Man page Source code
data.frame-method Man page
disk.pseudo.abs.selection Man page
disk.pseudo.abs.selection,ANY,RasterStack-method Man page
disk.pseudo.abs.selection,ANY,SpatialPointsDataFrame-method Man page
evaluate Man page Source code
free Man page
free,BIOMOD.projection.out-method Man page
full_suffling Man page Source code
getEM_needed_models Man page
getEM_needed_models,BIOMOD.EnsembleModeling.out-method Man page
getEMalgos Man page
getEMalgos,BIOMOD.EnsembleModeling.out-method Man page
getEMbuiltModels Man page
getEMbuiltModels,BIOMOD.EnsembleModeling.out-method Man page
getEMeval Man page
getEMeval,BIOMOD.EnsembleModeling.out-method Man page
getEMkeptModels Man page
getEMkeptModels,BIOMOD.EnsembleModeling.out-method Man page
getFormalModel Man page
getFormalModel,biomod2_model-method Man page
getModelsBuiltModels Man page
getModelsBuiltModels,BIOMOD.models.out-method Man page
getModelsEvaluations Man page
getModelsEvaluations,BIOMOD.models.out-method Man page
getModelsInputData Man page
getModelsInputData,BIOMOD.models.out-method Man page
getModelsOptions Man page
getModelsOptions,BIOMOD.models.out-method Man page
getModelsPrediction Man page
getModelsPrediction,BIOMOD.models.out-method Man page
getModelsPredictionEval Man page
getModelsPredictionEval,BIOMOD.models.out-method Man page
getModelsVarImport Man page
getModelsVarImport,BIOMOD.models.out-method Man page
getProjection Man page
getProjection,BIOMOD.projection.out-method Man page
getScalingModel Man page
getScalingModel,biomod2_model-method Man page
getStatOptimValue Man page Source code
get_built_models Man page Man page
get_built_models,BIOMOD.EnsembleModeling.out-method Man page Man page
get_built_models,BIOMOD.models.out-method Man page
get_calib_lines Man page
get_calib_lines,BIOMOD.models.out-method Man page
get_evaluations Man page Man page
get_evaluations,BIOMOD.EnsembleModeling.out-method Man page Man page
get_evaluations,BIOMOD.models.out-method Man page
get_formal_data Man page
get_formal_data,BIOMOD.models.out-method Man page
get_formal_model Man page
get_formal_model,biomod2_model-method Man page
get_kept_models Man page
get_kept_models,BIOMOD.EnsembleModeling.out-method Man page
get_needed_models Man page
get_needed_models,BIOMOD.EnsembleModeling.out-method Man page
get_options Man page
get_options,BIOMOD.models.out-method Man page
get_predictions Man page Man page Man page
get_predictions,BIOMOD.EnsembleModeling.out-method Man page
get_predictions,BIOMOD.models.out-method Man page Man page
get_predictions,BIOMOD.projection.out-method Man page Man page
get_projected_models Man page
get_projected_models,BIOMOD.projection.out-method Man page
get_scaling_model Man page
get_scaling_model,biomod2_model-method Man page
get_var_range Man page Source code
get_var_type Man page Source code
get_variables_importance Man page
get_variables_importance,BIOMOD.EnsembleModeling.out-method Man page
get_variables_importance,BIOMOD.models.out-method Man page
level.plot Man page
load_stored_object Man page
load_stored_object,BIOMOD.stored.data-method Man page
makeFormula Man page Source code
matrix-method Man page
models_scores_graph Man page Source code
multiple.plot Man page
numeric-method Man page
plot,BIOMOD.formated.data,missing-method Man page
plot,BIOMOD.formated.data.PA,missing-method Man page
plot,BIOMOD.projection.out,missing-method Man page
predict,ANN_biomod2_model-method Man page
predict,CTA_biomod2_model-method Man page
predict,EMca_biomod2_model-method Man page
predict,EMci_biomod2_model-method Man page
predict,EMcv_biomod2_model-method Man page
predict,EMmean_biomod2_model-method Man page
predict,EMmedian_biomod2_model-method Man page
predict,EMwmean_biomod2_model-method Man page
predict,FDA_biomod2_model-method Man page
predict,GAM_biomod2_model-method Man page
predict,GBM_biomod2_model-method Man page
predict,GLM_biomod2_model-method Man page
predict,MARS_biomod2_model-method Man page
predict,MAXENT.Phillips.2_biomod2_model-method Man page
predict,MAXENT.Phillips_biomod2_model-method Man page
predict,MAXENT.Tsuruoka_biomod2_model-method Man page
predict,RF_biomod2_model-method Man page
predict,SRE_biomod2_model-method Man page
random.pseudo.abs.selection Man page
random.pseudo.abs.selection,ANY,RasterStack-method Man page
random.pseudo.abs.selection,ANY,SpatialPointsDataFrame-method Man page
randomise_data Man page Source code
response.plot Man page Source code
response.plot2 Man page Source code
sample.factor.levels Man page Source code
show, Man page Man page
show,BIOMOD.EnsembleModeling.out-method Man page
show,BIOMOD.Model.Options-method Man page
show,BIOMOD.formated.data-method Man page
show,BIOMOD.formated.data.PA-method Man page
show,BIOMOD.models.out-method Man page
show,BIOMOD.projection.out-method Man page
show,biomod2_model-method Man page
sre Man page Source code
sre.pseudo.abs.selection Man page
sre.pseudo.abs.selection,ANY,RasterStack-method Man page
sre.pseudo.abs.selection,ANY,SpatialPointsDataFrame-method Man page
test_slots Source code
update.objects_BIOMOD.formated.data Source code
update.objects_BIOMOD.models.out Source code
update.objects_biomod2_model Source code
update_objects Man page Source code
user.defined.pseudo.abs.selection Man page
user.defined.pseudo.abs.selection,ANY,RasterStack-method Man page
user.defined.pseudo.abs.selection,ANY,SpatialPointsDataFrame-met Man page
variables_importance Man page Source code
biomodhub/biomod2 documentation built on Dec. 3, 2019, 3:46 a.m.