vegtf {ade4} | R Documentation |
This data set contains abundance values (Braun-Blanquet scale) of 80 plant species for 337 sites. Data have been collected by Sonia Said and Francois Debias.
data(vegtf)
vegtf
is a list containing the following objects :
is a data.frame with the abundance values of 80 species (columns) in 337 sites (rows).
is a data.frame with the spatial coordinates of the sites.
is data.frame (area) which define the boundaries of the study site.
is a neighborhood object (class nb defined in package spdep)
Dray, S., Said, S. and Debias, F. (2008) Spatial ordination of vegetation data using a generalization of Wartenberg's multivariate spatial correlation. Journal of vegetation science, 19, 45–56.
if(requireNamespace("spdep", quiet = TRUE)) { data(vegtf) coa1 <- dudi.coa(vegtf$veg, scannf = FALSE) ms.coa1 <- multispati(coa1, listw = nb2listw(vegtf$nb), nfposi = 2, nfnega = 0, scannf = FALSE) summary(ms.coa1) plot(ms.coa1) if(adegraphicsLoaded()) { g1 <- s.value(vegtf$xy, coa1$li[, 1], Sp = vegtf$Spatial, pSp.col = "white", plot = F) g2 <- s.value(vegtf$xy, ms.coa1$li[, 1], Sp = vegtf$Spatial, pSp.col = "white", plot = F) g3 <- s.label(coa1$c1, plot = F) g4 <- s.label(ms.coa1$c1, plot = F) G <- ADEgS(list(g1, g2, g3, g4), layout = c(2, 2)) } else { par(mfrow = c(2, 2)) s.value(vegtf$xy, coa1$li[, 1], area = vegtf$area, include.origin = FALSE) s.value(vegtf$xy, ms.coa1$li[, 1], area = vegtf$area, include.origin = FALSE) s.label(coa1$c1) s.label(ms.coa1$c1) } }