BIOMOD: Ensemble platform for species distribution modeling

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Functions for species distribution modeling, calibration and evaluation, ensemble of models.

Author
Wilfried Thuiller, Damien Georges and Robin Engler
Date of publication
2012-09-12 07:30:56
Maintainer
Wilfried Thuiller <wilfried.thuiller@ujf-grenoble.fr>
License
GPL-2
Version
1.1-7.04

View on R-Forge

Man pages

BinaryTransformation
Transforming data into a binary format
Biomod.Manual
Calling the Manual
BIOMOD-package
Species/climate modelling functions
Biomod.RangeSize
Analysis of the range size changes
Biomod.Turnover
Estimation of the Turnover for a given location and...
CoorXY
Coordinates for plotting the BIOMOD example maps
CreateProjMatrix
Creating a dataframe compiling the wanted projections
CurrentPred
Produce binary and filtered data within Biomod
CutOff.Optimised
Treshold estimation minimising difference between sensitivity...
Ensemble.Forecasting
Make ensemble forecasts for future projection of species'...
FilteringTransformation
Transforming data into a filtered format
Future1
Future data for making projections
Initial.State
Initialise the datasets for usage in Biomod
KappaRepet
Maximising Kappa and True Skill Statistics for incremental...
KappaStat
Kappa Statistic for predictive accuracy evaluation
level.plot
Plotting 2-dimensional data
LoadModels
Loading models produced by BIOMOD
LoadProj
Loading predictions and projections produced by BIOMOD
Migration
Using migration dynamics in species modelling
Models
Running the species-climate envelop models available in...
multiple.plot
Plot and compare prediction maps within BIOMOD
PredictionBestModel
Optimising the predictions using the evaluation scores for...
ProbDensFunc
Probability Density Function
Projection
Making projection with BIOMOD
ProjectionBestModel
Optimising the projections using the evaluation scores
pseudo.abs
Selecting pseudo-absences
response.plot
Analysis of the response curves of a model within Biomod
Sp.Env
Species and Environmental data for species-climate modelling...
sre
Surface Range Envelope
TSS.Stat
True Skill Statistic for predictive accuracy evaluation

Files in this package

BIOMOD
BIOMOD/NAMESPACE
BIOMOD/data
BIOMOD/data/CoorXY.rda
BIOMOD/data/DATA100SP.RData
BIOMOD/data/Sp.Env.rda
BIOMOD/data/Future1.rda
BIOMOD/R
BIOMOD/R/LoadProj.R
BIOMOD/R/somers2.R
BIOMOD/R/level.plot.R
BIOMOD/R/PredictionBestModel.R
BIOMOD/R/KappaStat.R
BIOMOD/R/Projection.R
BIOMOD/R/pseudo.abs.R
BIOMOD/R/sre.R
BIOMOD/R/Ensemble.Forecasting.raster2.R
BIOMOD/R/Ensemble.Forecasting.raster.R
BIOMOD/R/CreateProjMatrix.R
BIOMOD/R/CVnnet.R
BIOMOD/R/Initial.State.R
BIOMOD/R/TSS.Stat.R
BIOMOD/R/KappaSRE.R
BIOMOD/R/printcp.R
BIOMOD/R/Models.R
BIOMOD/R/BIOMOD-internal.R
BIOMOD/R/ProbDensFunc.R
BIOMOD/R/Dispersal.Limit.R
BIOMOD/R/BinaryTransformation.R
BIOMOD/R/SampleMat2.R
BIOMOD/R/Biomod.Turnover.raster.R
BIOMOD/R/CutOff.Optimised.R
BIOMOD/R/scope.R
BIOMOD/R/LoadRequiredPackages.R
BIOMOD/R/Biomod.RangeSize.raster.R
BIOMOD/R/Migration.R
BIOMOD/R/Rescaler4.R
BIOMOD/R/Biomod.Models.R
BIOMOD/R/testnull.R
BIOMOD/R/Biomod.Turnover.R
BIOMOD/R/functionkeep.R
BIOMOD/R/scopeExpSyst.R
BIOMOD/R/LoadModels.R
BIOMOD/R/CurrentPred.R
BIOMOD/R/ProjectionBestModel.R
BIOMOD/R/Projection.raster.R
BIOMOD/R/response.plot.R
BIOMOD/R/Biomod.Manual.r
BIOMOD/R/FilteringTransformation.R
BIOMOD/R/Biomod.RangeSize.R
BIOMOD/R/Ensemble.Forecasting.R
BIOMOD/R/multiple.plot.r
BIOMOD/R/KappaRepet.R
BIOMOD/inst
BIOMOD/inst/doc
BIOMOD/inst/doc/Biomod_Practical_Building_Models.pdf
BIOMOD/inst/doc/BIOMOD-R User Functions.R
BIOMOD/inst/doc/BiomodTutorial.pdf
BIOMOD/inst/doc/Biomod_Presentation_Manual.pdf
BIOMOD/inst/doc/Biomod Manual.pdf
BIOMOD/DESCRIPTION
BIOMOD/man
BIOMOD/man/TSS.Stat.Rd
BIOMOD/man/multiple.plot.Rd
BIOMOD/man/Models.Rd
BIOMOD/man/Ensemble.Forecasting.Rd
BIOMOD/man/response.plot.Rd
BIOMOD/man/Biomod.Manual.Rd
BIOMOD/man/ProjectionBestModel.Rd
BIOMOD/man/pseudo.abs.Rd
BIOMOD/man/level.plot.Rd
BIOMOD/man/BIOMOD-package.Rd
BIOMOD/man/Biomod.Turnover.Rd
BIOMOD/man/BinaryTransformation.Rd
BIOMOD/man/Initial.State.Rd
BIOMOD/man/Projection.Rd
BIOMOD/man/sre.Rd
BIOMOD/man/CurrentPred.Rd
BIOMOD/man/CreateProjMatrix.Rd
BIOMOD/man/KappaRepet.Rd
BIOMOD/man/CoorXY.Rd
BIOMOD/man/Sp.Env.Rd
BIOMOD/man/LoadProj.Rd
BIOMOD/man/PredictionBestModel.Rd
BIOMOD/man/CutOff.Optimised.Rd
BIOMOD/man/Migration.Rd
BIOMOD/man/Future1.Rd
BIOMOD/man/ProbDensFunc.Rd
BIOMOD/man/KappaStat.Rd
BIOMOD/man/FilteringTransformation.Rd
BIOMOD/man/Biomod.RangeSize.Rd
BIOMOD/man/LoadModels.Rd