biomod2 (version 2.0.0)

multiple.plot: Plot and compare prediction maps within BIOMOD

Description

This function allows a direct comparison of the predictions across models. The maps produced are the same than with the level.plot function

Usage

multiple.plot(Data, coor, color.gradient='red', plots.per.window=9, cex=1, save.file="no", name="multiple plot", ImageSize = "small", AddPresAbs = NULL, PresAbsSymbol = c(cex * 0.8, 16, 4))

Arguments

Data

the data to visualise

coor

a 2 columns matrix of the same length as data.in giving the coordinates of the data points

color.gradient

available : 'red', 'grey' and 'blue'

plots.per.window

the number of plots to visualise per graphic window

cex

to change the point size : >1 will increase size,

save.file

can be set to "pdf", "jpeg" or "tiff" to save the plot. Pdf options can be changed by setting the default values of pdf.options().

name

the name of the file produced if save.file is different to "no" (extensions are already included)

ImageSize

The image size for JPEG and TIFF files saved to disk. Available : 'small', 'standard' and 'large'

AddPresAbs

Optional: adds the presences and absences used for calibration to the plot. Data must be entered as a matrix/dataframe with 3 columns (in this order): X-coordinate, Y-coordinate, Presence(1) or Absence(0). X and Y coordinates must be in the same system as

PresAbsSymbol

Optional: a 3 element vector giving the symbols to be used by the AddPresAbs argument for plotting. The elements of the vector must be in this order: size of presence/absence symbols given as a multiplication factor of the 'cex' value entered in the funct

See Also

level.plot

Examples

species_occ <- read.csv(system.file("external/species/species_occ.csv",package="biomod2"))

# we consider only presences of MyocastorCoypus species
myRespName <- c("CapraIbex", "MelesMeles", "MyocastorCoypus")
myRespCoord <- species_occ[,c('x','y')]
myResp <- species_occ[,myRespName]

# NOTE: NA not supported yet
# replace NA by 0
myResp[is.na(myResp)] <- 0

multiple.plot(Data = myResp,
              coor = myRespCoord )