| matrix.p {SYNCSA} | R Documentation |
Function to obtain a matrix containing phylogeny-weighted species
composition. For more details, see syncsa.
matrix.p(comm, phylodist, notification = TRUE)
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). |
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. |
IMPORTANT: Species sequence in the community data
matrix MUST be the same as the one in the phylogenetic distance matrix. See
organize.syncsa.
Vanderlei Julio Debastiani <vanderleidebastiani@yahoo.com.br>
Pillar, V.D.; Duarte, L.d.S. (2010). A framework for metacommunity analysis of phylogenetic structure. Ecology Letters, 13, 587-596.
syncsa, organize.syncsa, belonging,
matrix.t, matrix.x
data(ADRS) matrix.p(ADRS$community, ADRS$phylo)