mafragh {ade4} | R Documentation |
This data set gives environmental and spatial informations about species and sites.
data(mafragh)
mafragh
is a list of 6 components.
area
Belair, G.d. and Bencheikh-Lehocine, M. (1987) Composition et déterminisme de la végétation d'une plaine côtière marécageuse : La Mafragh (Annaba, Algérie). Bulletin d'Ecologie, 18, 393–407.
See a data description at http://pbil.univ-lyon1.fr/R/pps/pps053.pdf (in French).
data(mafragh) par(mfrow = c(3,2)) s.label(mafragh$xy, inc = FALSE, neig = mafragh$neig, sub = "Samples & Neighbourhood graph") coa1 <- dudi.coa(mafragh$flo, scan = FALSE) s.value(mafragh$xy, coa1$li[,1], sub = "Axis 1 - COA") pca1 <- dudi.pca(mafragh$xy, scan = FALSE) s.value(mafragh$xy, pca1$li[,1], sub = "Axis 1 - PCA") s.class(pca1$li, mafragh$partition, sub = "Plane 1-2 - PCA") s.class(coa1$li, mafragh$partition, sub = "Plane 1-2 - COA") s.chull(mafragh$xy, mafragh$partition, optchull = 1) par(mfrow=c(1,1)) ## Not run: link1 <- area2link(mafragh$area) neig1 <- neig(mat01 = 1*(link1>0)) nb1 <- neig2nb(neig1) par(mfrow = c(2,1)) area.plot(mafragh$area,center = mafragh$xy,clab=0.75) area.plot(mafragh$area,center = mafragh$xy,graph=neig1) if (require(maptools, quiet = TRUE) & require(spdep, quiet = TRUE)) { lw1 <- apply(link1,1,function(x) x[x>0]) listw1 <- nb2listw(nb1,lw1) coa1 <- dudi.coa(mafragh$flo, scan = FALSE, nf = 4) ms1 <- multispati(coa1, listw1, scan = FALSE, nfp = 2, nfn = 0) summary(ms1) par(mfrow = c(2,2)) barplot(coa1$eig) barplot(ms1$eig) s.corcircle(ms1$as) plot(coa1$li[,1], ms1$li[,1]) } par(mfrow = c(1,1)) ## End(Not run)