matrix.p {SYNCSA}

Matrix P

Description

Function to obtain a matrix containing phylogeny-weighted species composition. For more details, see syncsa.

Usage

matrix.p(comm, phylodist, notification = TRUE)

Arguments

comm

Community data, with species as columns and sampling units as rows. This matrix can contain either presence/absence or abundance data.

phylodist

Matrix containing phylogenetic distance between species. Must be a complete matrix (not a diagonal resemblance matrix).

notification

Logical argument (TRUE or FALSE) to specify if notifications for missing observations are to be shown (Default notification = TRUE).

Value

matrix.w

Standardized community matrix, where rows are communities and columns species. Row totals (communities) = 1.

matrix.q

Standardized matrix containing the degree of belonging of species in relation to each other. Row totals (species) = 1.

matrix.P

Phylogeny-weighted species composition matrix. Row totals (communities) = 1.

Note

IMPORTANT: Species sequence in the community data matrix MUST be the same as the one in the phylogenetic distance matrix. See organize.syncsa.

Author(s)

Vanderlei Julio Debastiani <[e-mail]>

References

Pillar, V.D.; Duarte, L.d.S. (2010). A framework for metacommunity analysis of phylogenetic structure. Ecology Letters, 13, 587-596.

See Also

syncsa, organize.syncsa, belonging, matrix.t, matrix.x

Examples

data(ADRS)
matrix.p(ADRS$community, ADRS$phylo)