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biomod2 (version 3.3-7)
Ensemble Platform for Species Distribution Modeling
Description
Functions for species distribution modeling, calibration and evaluation, ensemble of models.
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Install
install.packages('biomod2')
Monthly Downloads
2,656
Version
3.3-7
License
GPL-2
Maintainer
Damien Georges
Last Published
March 1st, 2016
Functions in biomod2 (3.3-7)
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BIOMOD.projection.out-class
BIOMOD_Projection() outputs objects class
FilteringTransformation
Convert species' probability of occurrence into binary presence-absence data using a predefined threshold
BIOMOD_LoadModels
Load models built within BIOMOD_Modeling function
biomod2-package
Species Distribution Modeling within an Ensemble Forecasting framework
makeFormula
Standardized formula maker
update_objects
update biomod2 objects
BinaryTransformation
Convert species' probability of occurrence into binary presence-absence data using a predefined threshold
BIOMOD_FormatingData
Initialise the datasets for usage in
biomod2
response.plot2
Function for for plotting predicted responses from species distribution models in 2 or 3 dimensions
BIOMOD.stored.objects-class
BIOMOD.stored.xxx objects class
BIOMOD_ConvertOldRun
Convert objects and outputs from BIOMOD.xx into biomod2.xx objects and outputs
getStatOptimValue
get the optimal score of evaluation statistical metrics
evaluate
biomod2 modelling outputs evaluation
BIOMOD_ModelingOptions
Configure the modeling options for each selected model
multiple.plot
Plot and compare prediction maps within BIOMOD
BIOMOD_EnsembleModeling
Create and evaluate an ensemble set of models and predictions
BIOMOD_Modeling
Run a range of species distribution models
BIOMOD.EnsembleModeling.out-method
BIOMOD.EnsembleModeling.out getters
BIOMOD.Model.Options-class
BIOMOD_ModelingOptions() outputs objects class
level.plot
Plot 2-dimensional data for visualizing distribution of species or environment
Find.Optim.Stat
Calculate the best score according to a given evaluation method
BIOMOD_Projection
Project the calibrated models within
biomod2
into new space or time
sample.factor.levels
Tool to ensure the sampling of all levels of a factorial variable
Print_Default_ModelingOptions
Get default values of BIOMOD inner models' options
full_suffling
data set shuffling tool
BIOMOD.projection.out-method
BIOMOD.projection.out getters
BIOMOD.formated.data-class
BIOMOD_FormatingData() outputs objects class
BIOMOD.EnsembleModeling.out-class
BIOMOD_EnsembleModeling() outputs objects class
ProbDensFunc
Probability Density Function
models_scores_graph
Produce models evaluation bi-dimensional graph
BIOMOD_RangeSize
Analysis of the range size changes
BIOMOD.models.out-methods
BIOMOD.models.out getters
biomod2_model-class
biomod2 models objects class and functions
BIOMOD.stored.objects-methods
BIOMOD.stored.objects functions
BIOMOD_EnsembleForecasting
Ensemble projections of species over space and time
calculate.stat
Calculate evaluation metrics based on a misclassification table
CustomIndexMaker
Replace default package Index help file by a custom one.
biomod2.inner-method
biomod2 internal functions
BIOMOD.models.out-RemoveProperly
remove properly BIOMOD_Modeling outputs
randomise_data
data set shuffling tool
BIOMOD_cv
Custom models cross-validation procedure
SampleMat2
Sample binary vector
variables_importance
Variables importance calculation
response.plot
Analysis of the response curves of a model within Biomod
sre
Surface Range Envelope
BIOMOD.models.out-class
BIOMOD_modelling() outputs objects class
BIOMOD_presenceonly
evaluate models with presences only metrics
BIOMOD_tuning
Tune models parameters
DF_to_ARRAY
Convert a biomod2 data.frame (or list) into array
biomod2.deprecated.functions
biomod2 deprecated functions