letsR (version 5.0)

lets.field: Create species' values based on the species co-occurrence within focal ranges

Description

Create single species' values based on the attributes of species co-occurring within individual ranges.

Usage

lets.field(x, y, z, weight = TRUE, xy = NULL, count = FALSE)

Arguments

x

A PresenceAbsence object or a presence-absence in matrix format (see xy argument for matrix use) with the species named in the columns.

y

Species attribute to be considered. It must be a numeric attribute.

z

Species names in the same order as the attributes and exactly the same as named in the matrix or in the PresenceAbsence object.

weight

If TRUE the value is weighted by species' range size, if FALSE the value is the mean of all species that co-occur within the focal species.

xy

If TRUE the presence-absence matrix contains the cell coordinates in the first two columns.

count

Logical, if TRUE a counting window will open.

Author

Bruno Vilela & Fabricio Villalobos

Details

If the species do not co-occur with any other species NaN will be returned.

References

Villalobos, F. and Arita, H.T. 2010. The diversity field of New World leaf-nosed bats (Phyllostomidae). Global Ecology and Biogeography. 19, 200-211.

Villalobos, F., Rangel, T.F., and Diniz-Filho, J.A.F. 2013. Phylogenetic fields of species: cross-species patterns of phylogenetic structure and geographical coexistence. Proceedings of the Royal Society B. 280, 20122570.

See Also

lets.presab.birds

lets.presab

Examples

if (FALSE) {
data(PAM)
range <- lets.rangesize(x = PAM, units = "cell")
field <- lets.field(PAM, range, PAM$S, weight = TRUE)
}