biomod2
Ensemble Platform for Species Distribution Modeling

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biomod2: Ensemble Platform for Species Distribution Modeling
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API

API for biomod2
Ensemble Platform for Species Distribution Modeling

Global functions
.BIOMOD.formated.data.PA Source code
.BIOMOD.formated.data.check.args Source code
.BIOMOD.options.dataset.check.args Source code
.BIOMOD.options.default.check.args Source code
.BIOMOD_EnsembleForecasting.check.args Source code
.BIOMOD_EnsembleForecasting.prepare.workdir Source code
.BIOMOD_EnsembleModeling.check.args Source code
.BIOMOD_FormatingData.check.args Source code
.BIOMOD_LoadModels.check.args Source code
.BIOMOD_Modeling.check.args Source code
.BIOMOD_Modeling.check.args.obsolete Source code
.BIOMOD_Modeling.prepare.workdir Source code
.BIOMOD_Modeling.summary Source code
.BIOMOD_Projection.check.args Source code
.BIOMOD_RangeSize.check.args Source code
.CompteurSp Source code
.add_pa_rownames Source code
.as_ggdat Source code
.automatic_weights_creation Source code
.bm_CrossValidation.check.args Source code
.bm_FindOptimStat.check.args Source code
.bm_ModelingOptions.check.args Source code
.bm_PlotEvalBoxplot.check.args Source code
.bm_PlotEvalMean.check.args Source code
.bm_PlotResponseCurves.check.args Source code
.bm_PlotVarImpBoxplot.check.args Source code
.bm_PseudoAbsences.check.args Source code
.bm_RunModel.check.args Source code
.bm_SRE.check.args Source code
.bm_Tuning.check.args Source code
.bm_VariablesImportance.check.args Source code
.bm_cat Source code
.build_clamping_mask Source code
.categorical2numeric Man page Source code
.categorical_stack_to_terra Source code
.check_calib.lines_names Source code
.check_env_levels Source code
.check_formating_expl.var Source code
.check_formating_resp.var Source code
.check_formating_spatial Source code
.check_formating_table Source code
.check_formating_xy Source code
.clever_cut Source code
.contingency_table_check Source code
.convert_bin.array Source code
.convert_bin.array.filt Source code
.convert_bin.matrix Source code
.extract_modelNamesInfo Source code
.extract_projlinkInfo Source code
.extract_selected.layers Source code
.fill_BIOMOD.models.out Source code
.filter_outputs.df Source code
.filter_outputs.vec Source code
.format_proj.df Source code
.full_shuffling Source code
.fun_testIf01 Source code
.fun_testIfIn Source code
.fun_testIfInherits Source code
.fun_testIfPosInt Source code
.fun_testIfPosNum Source code
.fun_testMetric Source code
.getOS Source code
.get_categorical_names Man page Source code
.get_data_mask Source code
.get_env_class Man page Source code
.get_formal_predictions Source code
.get_kept_models Source code
.get_models_assembling Source code
.get_nb_available_pa_cells Source code
.get_nb_true_abs Source code
.get_needed_predictions Source code
.guess_scale Source code
.load_gam_namespace Man page Source code
.maxent.prepare.workdir Source code
.onAttach Source code
.plot.BIOMOD.formated.data.check.args Source code
.plot.BIOMOD.projection.out.check.args Source code
.print_control Source code
.print_formula Source code
.randomise_data Source code
.run_pred Source code
.sample_mat Source code
.scaling_model Source code
.scope Source code
.scope_expSyst Source code
.sre_projection Source code
.summary.BIOMOD.formated.data.check.args Source code
.transform.outputs.list Man page Source code
.transform.outputs.list-deprecated Man page
.transform_model.as.col Man page Source code
.transform_outputs_list Source code
ANN_biomod2_model-class Man page
BIOMOD.ensemble.models.out Man page
BIOMOD.ensemble.models.out-class Man page
BIOMOD.formated.data Man page
BIOMOD.formated.data,data.frame,ANY-method Man page
BIOMOD.formated.data,numeric,SpatRaster-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
BIOMOD.formated.data.PA,numeric,SpatRaster-method Man page
BIOMOD.formated.data.PA,numeric,data.frame-method Man page
BIOMOD.formated.data.PA-class Man page
BIOMOD.models.options Man page
BIOMOD.models.options-class Man page
BIOMOD.models.out Man page
BIOMOD.models.out-class Man page
BIOMOD.options.dataset Man page
BIOMOD.options.dataset,character-method Man page
BIOMOD.options.dataset-class Man page
BIOMOD.options.default Man page
BIOMOD.options.default,character,character-method Man page
BIOMOD.options.default-class Man page
BIOMOD.projection.out Man page
BIOMOD.projection.out-class Man page
BIOMOD.stored.SpatRaster-class Man page
BIOMOD.stored.data Man page
BIOMOD.stored.data-class Man page
BIOMOD.stored.data.frame-class Man page
BIOMOD.stored.files-class Man page
BIOMOD.stored.formated.data-class Man page
BIOMOD.stored.models.out-class Man page
BIOMOD.stored.options-class Man page
BIOMOD_CrossValidation Man page Source code
BIOMOD_CrossValidation-deprecated Man page
BIOMOD_EnsembleForecasting Man page Source code
BIOMOD_EnsembleModeling Man page Source code
BIOMOD_FormatingData Man page Source code
BIOMOD_LoadModels Man page Source code
BIOMOD_Modeling Man page Source code
BIOMOD_PresenceOnly Man page Source code
BIOMOD_PresenceOnly-deprecated Man page
BIOMOD_Projection Man page Source code
BIOMOD_RangeSize Man page
BIOMOD_RangeSize,SpatRaster,SpatRaster-method Man page
BIOMOD_RangeSize,data.frame,data.frame-method Man page
BIOMOD_Tuning Man page Source code
BIOMOD_tuning-deprecated Man page
BinaryTransformation Man page Source code
BinaryTransformation-deprecated Man page
CTA_biomod2_model-class Man page
DataSpecies Man page
EMca_biomod2_model-class Man page
EMci_biomod2_model-class Man page
EMcv_biomod2_model-class Man page
EMmean_biomod2_model-class Man page
EMmedian_biomod2_model-class Man page
EMwmean_biomod2_model-class Man page
FDA_biomod2_model-class Man page
Find.Optim.Stat Man page Source code
Find.Optim.Stat-deprecated Man page
GAM_biomod2_model-class Man page
GBM_biomod2_model-class Man page
GLM_biomod2_model-class Man page
MARS_biomod2_model-class Man page
MAXENT_biomod2_model-class Man page
MAXNET_biomod2_model-class Man page
ModelsTable Man page
OptionsBigboss Man page
ProbDensFunc Man page Source code
ProbDensFunc-deprecated Man page
RF_biomod2_model-class Man page
SRE_biomod2_model-class Man page
XGBOOST_biomod2_model-class Man page
bioclim_current Man page
bioclim_future Man page
biomod2-deprecated Man page
biomod2_ensemble_model Man page
biomod2_ensemble_model-class Man page
biomod2_model Man page
biomod2_model-class Man page
bm_BinaryTransformation Man page
bm_BinaryTransformation,SpatRaster-method Man page
bm_BinaryTransformation,data.frame-method Man page
bm_BinaryTransformation,matrix-method Man page
bm_BinaryTransformation,numeric-method Man page
bm_CalculateStat Man page Source code
bm_CrossValidation Man page Source code
bm_CrossValidation_block Man page
bm_CrossValidation_block,BIOMOD.formated.data-method Man page
bm_CrossValidation_block,BIOMOD.formated.data.PA-method Man page
bm_CrossValidation_env Man page
bm_CrossValidation_env,BIOMOD.formated.data-method Man page
bm_CrossValidation_env,BIOMOD.formated.data.PA-method Man page
bm_CrossValidation_kfold Man page
bm_CrossValidation_kfold,BIOMOD.formated.data-method Man page
bm_CrossValidation_kfold,BIOMOD.formated.data.PA-method Man page
bm_CrossValidation_random Man page
bm_CrossValidation_random,BIOMOD.formated.data-method Man page
bm_CrossValidation_random,BIOMOD.formated.data.PA-method Man page
bm_CrossValidation_strat Man page
bm_CrossValidation_strat,BIOMOD.formated.data-method Man page
bm_CrossValidation_strat,BIOMOD.formated.data.PA-method Man page
bm_CrossValidation_user.defined Man page
bm_CrossValidation_user.defined,BIOMOD.formated.data-method Man page
bm_CrossValidation_user.defined,BIOMOD.formated.data.PA-method Man page
bm_FindOptimStat Man page Source code
bm_MakeFormula Man page Source code
bm_ModelingOptions Man page Source code
bm_PlotEvalBoxplot Man page Source code
bm_PlotEvalMean Man page Source code
bm_PlotRangeSize Man page Source code
bm_PlotResponseCurves Man page Source code
bm_PlotVarImpBoxplot Man page Source code
bm_PseudoAbsences Man page Source code
bm_PseudoAbsences_disk Man page
bm_PseudoAbsences_disk,ANY,SpatRaster-method Man page
bm_PseudoAbsences_disk,ANY,SpatVector-method Man page
bm_PseudoAbsences_random Man page
bm_PseudoAbsences_random,ANY,SpatRaster-method Man page
bm_PseudoAbsences_random,ANY,SpatVector-method Man page
bm_PseudoAbsences_sre Man page
bm_PseudoAbsences_sre,ANY,SpatRaster-method Man page
bm_PseudoAbsences_sre,ANY,SpatVector-method Man page
bm_PseudoAbsences_user.defined Man page
bm_PseudoAbsences_user.defined,ANY,SpatRaster-method Man page
bm_PseudoAbsences_user.defined,ANY,SpatVector-method Man page
bm_RunModel Man page Source code
bm_RunModelsLoop Man page Source code
bm_SRE Man page Source code
bm_SampleBinaryVector Man page Source code
bm_SampleFactorLevels Man page Source code
bm_SampleFactorLevels.SpatRaster Source code
bm_SampleFactorLevels.data.frame Man page Source code
bm_SampleFactorLevels.raster Man page
bm_Tuning Man page Source code
bm_VariablesImportance Man page Source code
calculate.stat Man page Source code
calculate.stat-deprecated Man page
check_duplicated_cells Man page Source code
ecospat.boyce Source code
ecospat.mpa Source code
free Man page
free,BIOMOD.projection.out-method Man page
getStatOptimValue Man page Source code
getStatOptimValue-deprecated Man page
get_built_models Man page
get_built_models,BIOMOD.ensemble.models.out-method 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_eval_data Man page
get_eval_data,BIOMOD.formated.data-method Man page
get_evaluations Man page
get_evaluations,BIOMOD.ensemble.models.out-method Man page
get_evaluations,BIOMOD.models.out-method Man page
get_formal_data Man page
get_formal_data,BIOMOD.ensemble.models.out-method 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.ensemble.models.out-method Man page
get_optim_value Man page Source code
get_options Man page
get_options,BIOMOD.models.out-method Man page
get_predictions Man page
get_predictions,BIOMOD.ensemble.models.out-method Man page
get_predictions,BIOMOD.models.out-method Man page
get_predictions,BIOMOD.projection.out-method 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_species_data Man page
get_species_data,BIOMOD.formated.data-method Man page
get_species_data,BIOMOD.formated.data.PA-method Man page
get_var_range Source code
get_var_type Source code
get_variables_importance Man page
get_variables_importance,BIOMOD.ensemble.models.out-method Man page
get_variables_importance,BIOMOD.models.out-method Man page
getters.bm Man page
getters.out Man page
load_stored_object Man page
load_stored_object,BIOMOD.stored.SpatRaster-method Man page
load_stored_object,BIOMOD.stored.data-method Man page
makeFormula Man page Source code
makeFormula-deprecated Man page
models_scores_graph Man page Source code
models_scores_graph-deprecated Man page
plot,BIOMOD.formated.data,missing-method Man page
plot,BIOMOD.projection.out,missing-method Man page
predict,biomod2_model-method Man page
predict.biomod2_model Man page
predict.bm Man page
predict.em Man page
predict2 Man page
predict2,ANN_biomod2_model,SpatRaster-method Man page
predict2,ANN_biomod2_model,data.frame-method Man page
predict2,CTA_biomod2_model,SpatRaster-method Man page
predict2,CTA_biomod2_model,data.frame-method Man page
predict2,EMca_biomod2_model,SpatRaster-method Man page
predict2,EMca_biomod2_model,data.frame-method Man page
predict2,EMci_biomod2_model,SpatRaster-method Man page
predict2,EMci_biomod2_model,data.frame-method Man page
predict2,EMcv_biomod2_model,SpatRaster-method Man page
predict2,EMcv_biomod2_model,data.frame-method Man page
predict2,EMmean_biomod2_model,SpatRaster-method Man page
predict2,EMmean_biomod2_model,data.frame-method Man page
predict2,EMmedian_biomod2_model,SpatRaster-method Man page
predict2,EMmedian_biomod2_model,data.frame-method Man page
predict2,EMwmean_biomod2_model,SpatRaster-method Man page
predict2,EMwmean_biomod2_model,data.frame-method Man page
predict2,FDA_biomod2_model,SpatRaster-method Man page
predict2,FDA_biomod2_model,data.frame-method Man page
predict2,GAM_biomod2_model,SpatRaster-method Man page
predict2,GAM_biomod2_model,data.frame-method Man page
predict2,GBM_biomod2_model,SpatRaster-method Man page
predict2,GBM_biomod2_model,data.frame-method Man page
predict2,GLM_biomod2_model,SpatRaster-method Man page
predict2,GLM_biomod2_model,data.frame-method Man page
predict2,MARS_biomod2_model,SpatRaster-method Man page
predict2,MARS_biomod2_model,data.frame-method Man page
predict2,MAXENT_biomod2_model,SpatRaster-method Man page
predict2,MAXENT_biomod2_model,data.frame-method Man page
predict2,MAXNET_biomod2_model,SpatRaster-method Man page
predict2,MAXNET_biomod2_model,data.frame-method Man page
predict2,RF_biomod2_model,SpatRaster-method Man page
predict2,RF_biomod2_model,data.frame-method Man page
predict2,SRE_biomod2_model,SpatRaster-method Man page
predict2,SRE_biomod2_model,data.frame-method Man page
predict2,XGBOOST_biomod2_model,SpatRaster-method Man page
predict2,XGBOOST_biomod2_model,data.frame-method Man page
predict2,biomod2_ensemble_model,SpatRaster-method Man page
predict2,biomod2_ensemble_model,data.frame-method Man page
predict2,biomod2_model,SpatRaster-method Man page
predict2,biomod2_model,data.frame-method Man page
predict2.ANN_biomod2_model.SpatRaster Man page
predict2.ANN_biomod2_model.data.frame Man page
predict2.CTA_biomod2_model.SpatRaster Man page
predict2.CTA_biomod2_model.data.frame Man page
predict2.EMca_biomod2_model.SpatRaster Man page
predict2.EMca_biomod2_model.data.frame Man page
predict2.EMci_biomod2_model.SpatRaster Man page
predict2.EMci_biomod2_model.data.frame Man page
predict2.EMcv_biomod2_model.SpatRaster Man page
predict2.EMcv_biomod2_model.data.frame Man page
predict2.EMmean_biomod2_model.SpatRaster Man page
predict2.EMmean_biomod2_model.data.frame Man page
predict2.EMmedian_biomod2_model.SpatRaster Man page
predict2.EMmedian_biomod2_model.data.frame Man page
predict2.EMwmean_biomod2_model.SpatRaster Man page
predict2.EMwmean_biomod2_model.data.frame Man page
predict2.FDA_biomod2_model.SpatRaster Man page
predict2.FDA_biomod2_model.data.frame Man page
predict2.GAM_biomod2_model.SpatRaster Man page
predict2.GAM_biomod2_model.data.frame Man page
predict2.GBM_biomod2_model.SpatRaster Man page
predict2.GBM_biomod2_model.data.frame Man page
predict2.GLM_biomod2_model.SpatRaster Man page
predict2.GLM_biomod2_model.data.frame Man page
predict2.MARS_biomod2_model.SpatRaster Man page
predict2.MARS_biomod2_model.data.frame Man page
predict2.MAXENT_biomod2_model.data.frame Man page
predict2.MAXNET_biomod2_model.SpatRaster Man page
predict2.MAXNET_biomod2_model.data.frame Man page
predict2.RF_biomod2_model.SpatRaster Man page
predict2.RF_biomod2_model.data.frame Man page
predict2.SRE_biomod2_model.SpatRaster Man page
predict2.SRE_biomod2_model.data.frame Man page
predict2.biomod2_ensemble_model.SpatRaster Man page
predict2.biomod2_ensemble_model.data.frame Man page
predict2.biomod2_model.SpatRaster Man page
predict2.biomod2_model.data.frame Man page
predict2.bm Man page
predict2.em Man page
print,BIOMOD.models.options-method Man page
print,BIOMOD.options.dataset-method Man page
rast.has.values Man page Source code
response.plot2 Man page Source code
response.plot2-deprecated Man page
sample.factor.levels Man page Source code
sample.factor.levels-deprecated Man page
show,BIOMOD.ensemble.models.out-method Man page
show,BIOMOD.formated.data-method Man page
show,BIOMOD.models.options-method Man page
show,BIOMOD.models.out-method Man page
show,BIOMOD.options.dataset-method Man page
show,BIOMOD.projection.out-method Man page
show,biomod2_ensemble_model-method Man page
show,biomod2_model-method Man page
sre Man page Source code
sre-deprecated Man page
summary,BIOMOD.formated.data-method Man page
variables_importance Man page Source code
variables_importance-deprecated Man page
xgbpred Source code
zzz_bm Man page Source code
biomod2 documentation built on June 22, 2024, 10:56 a.m.

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