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Crop a PresenceAbsence object based on an input shapefile

Source: R/lets_pamcrop.R
lets.PAMcrop.Rd

Crop a PresenceAbsence object based on a shapefile provided by the user.

Usage

lets.pamcrop(x, shp, remove.sp = TRUE, remove.cells = FALSE)

Arguments

x

A PresenceAbsence object.

shp

Object of class SpatVector (see function terra::vect) to crop the PresenceAbsence object.

remove.sp

Logical, if TRUE the final matrix will not contain species that do not match any cell in the grid.

remove.cells

Logical, if FALSE the final matrix will not contain cells in the grid with a value of zero (i.e. sites with no species present).

Value

The result is an object of class PresenceAbsence croped.

See also

plot.PresenceAbsence

lets.presab.birds

Author

Bruno Vilela

Examples

if (FALSE) {
data(PAM)
data("wrld_simpl")

# PAM before crop
plot(PAM, xlab = "Longitude", ylab = "Latitude",
     main = "Phyllomedusa species richness")

# Crop PAM to Brazil
data(wrld_simpl)  # World map
Brazil <- wrld_simpl[wrld_simpl$NAME == "Brazil", ]  # Brazil (polygon)
PAM_crop <- lets.pamcrop(PAM, Brazil, remove.sp = TRUE)
plot(PAM_crop, xlab = "Longitude", ylab = "Latitude",
     main = "Phyllomedusa species richness (Brazil crop)")
plot(sf::st_geometry(wrld_simpl), add = TRUE)
}