BIOMOD.formated.data objects are created, used and returned by BIOMOD functions. It's contains the minimal set of data biomod2 needs to work. Input data given to BIOMOD_FormatingData are rearranged to fit with BIOMOD_Modeling input format. All data are stored into matrix (even environmental raster) explaining why some objects appears to be quite heavy.
If you ask for pseudo absences selection in BIOMOD_FormatingData, you will get a BIOMOD.formated.data.PA, else you will get a BIOMOD.formated.data.PA object.
output of: BIOMOD_FormatingData
input of: BIOMOD_Modeling
BIOMOD.formated.data
sp.name:"character", species name
coord:"data.frame", species points XY coordinates
data.species:"numeric", species presences, absences and no information kept points
data.env.var:"data.frame", explanatory variables associated to species points
has.data.eval:"logical", was specific models evaluation dataset given ?
eval.coord:"data.frame", species models evaluation points XY coordinates
eval.data.species:"numeric", species presences, absences and no information models evaluation kept points
eval.data.env.var:"data.frame", explanatory variables associated to models evaluation species points
BIOMOD.formated.data
sp.name:"character", species name
coord:"data.frame", species points XY coordinates
data.species:"numeric", species presences, absences and no information kept points
data.env.var:"data.frame", explanatory variables associated to species points
has.data.eval:"logical", was specific models evaluation dataset given ?
eval.coord:"data.frame", species models evaluation points XY coordinates
eval.data.species:"numeric", species presences, absences and no information models evaluation kept points
eval.data.env.var:"data.frame", explanatory variables associated to models evaluation species points
PA:"data.frame", each column contains 1 or 0 indicating for each species points if it was select or not in associated PA dataset
Damien Georges
showClass("BIOMOD.formated.data")
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