biomod2 (version 4.2-5)

summary,BIOMOD.formated.data-method: summary method for BIOMOD.formated.data object class

Description

Summarize the number of presences, absences and pseudo-absences among the different potential dataset (calibration, validation and evaluation).

Usage

# S4 method for BIOMOD.formated.data
summary(object, calib.lines = NULL)

Value

a data.frame

Arguments

object

a BIOMOD.formated.data or BIOMOD.formated.data.PA object returned by the BIOMOD_FormatingData function

calib.lines

(optional, default NULL)
an array object returned by get_calib_lines or bm_CrossValidation functions, to explore the distribution of calibration and validation datasets

Author

Remi Patin

Examples

library(terra)

# Load species occurrences (6 species available)
data(DataSpecies)
head(DataSpecies)

# Select the name of the studied species
myRespName <- 'GuloGulo'

# Get corresponding presence/absence data
myResp <- as.numeric(DataSpecies[, myRespName])

# Get corresponding XY coordinates
myRespXY <- DataSpecies[, c('X_WGS84', 'Y_WGS84')]

# Load environmental variables extracted from BIOCLIM (bio_3, bio_4, bio_7, bio_11 & bio_12)
data(bioclim_current)
myExpl <- terra::rast(bioclim_current)

# \dontshow{
myExtent <- terra::ext(0,30,45,70)
myExpl <- terra::crop(myExpl, myExtent)
# }

## ----------------------------------------------------------------------- #
# Format Data with true absences
myBiomodData <- BIOMOD_FormatingData(resp.var = myResp,
                                     expl.var = myExpl,
                                     resp.xy = myRespXY,
                                     resp.name = myRespName)
myBiomodData
summary(myBiomodData)