ade4 (version 1.7-5)

avijons: Bird species distribution

Description

This data set contains information about spatial distribution of bird species in a zone surrounding the river Rhône near Lyon (France).

Usage

data(avijons)

Format

avijons is a list with the following objects :

Source

Bournaud, M., Amoros, C., Chessel, D., Coulet, M., Doledec, S., Michelot, J.L., Pautou, G., Rostan, J.C., Tachet, H. and Thioulouse, J. (1990) Peuplements d'oiseaux et propriétés des écocomplexes de la plaine du Rhône : descripteurs de fonctionnement global et gestion des berges. Rapport programme S.R.E.T.I.E., Ministère de l'Environnement CORA et URA CNRS 367, Univ. Lyon I.

References

Thioulouse, J., Chessel, D. and Champely, S. (1995) Multivariate analysis of spatial patterns: a unified approach to local and global structures. Environmental and Ecological Statistics, 2, 1--14.

See a data description at http://pbil.univ-lyon1.fr/R/pdf/pps051.pdf (in French).

Examples

data(avijons)
w1 <- dudi.coa(avijons$fau, scannf = FALSE)$li
area.plot(avijons$area, center = avijons$xy, val = w1[, 1], clab = 0.75, 
  sub = "CA Axis 1", csub = 3)
  
## Not run: 
# data(avijons)
# if(!adegraphicsLoaded()) {
#   if(requireNamespace("pixmap", quiet = TRUE)) {
#     pnm.eau <- read.pnm(system.file("pictures/avijonseau.pnm", package = "ade4"))
#     pnm.rou <- read.pnm(system.file("pictures/avijonsrou.pnm", package = "ade4"))
#     pnm.veg <- read.pnm(system.file("pictures/avijonsveg.pnm", package = "ade4"))
#     pnm.vil <- read.pnm(system.file("pictures/avijonsvil.pnm", package = "ade4"))
#     jons.coa <- dudi.coa(avijons$fau, scan = FALSE, nf = 4)
#     
#     par(mfcol = c(3, 2))
#     s.value(avijons$xy, jons.coa$li[, 1], pixmap = pnm.rou, inclu = FALSE,
#       grid = FALSE, addax = FALSE, cleg = 0, sub = "F1+ROADS", csub = 3)
#     s.value(avijons$xy, jons.coa$li[, 1], pixmap = pnm.veg, inclu = FALSE,
#       grid = FALSE, addax = FALSE, cleg = 0, sub = "F1+TREES", csub = 3)
#     s.value(avijons$xy, jons.coa$li[, 1], pixmap = pnm.eau, inclu = FALSE,
#       grid = FALSE, addax = FALSE, cleg = 0, sub = "F1+WATER", csub = 3)
#     s.value(avijons$xy, jons.coa$li[, 2], pixmap = pnm.rou, inclu = FALSE,
#       grid = FALSE, addax = FALSE, cleg = 0, sub = "F2+ROADS", csub = 3)
#     s.value(avijons$xy, jons.coa$li[, 2], pixmap = pnm.veg, inclu = FALSE,
#       grid = FALSE, addax = FALSE, cleg = 0, sub = "F2+TREES", csub = 3)
#     s.value(avijons$xy, jons.coa$li[, 2], pixmap = pnm.eau, inclu = FALSE,
#       grid = FALSE, addax = FALSE, cleg = 0, sub = "F2+WATER", csub = 3)
#     par(mfrow = c(1, 1))
#   }
# 
#   if(requireNamespace("maptools", quiet = TRUE) & requireNamespace("spdep", quiet = TRUE) & 
#     requireNamespace("pixmap", quiet = TRUE)) {
#     
#     link1 <- area2link(avijons$area)
#     lw1 <- apply(link1, 1, function(x) x[x > 0])
#     neig1 <- neig(mat01 = 1*(link1 > 0))
#     nb1 <- neig2nb(neig1)
#     listw1 <- nb2listw(nb1,lw1)
#     jons.ms <- multispati(jons.coa, listw1, scan = FALSE, nfp = 3, nfn = 2)
#     summary(jons.ms)
#     par(mfrow = c(2, 2))
#     barplot(jons.coa$eig)
#     barplot(jons.ms$eig)
#     s.corcircle(jons.ms$as)
#     plot(jons.coa$li[, 1], jons.ms$li[, 1])
#     par(mfrow = c(1, 1))
# 
#     par(mfcol = c(3, 2))
#     s.value(avijons$xy, jons.ms$li[, 1], pixmap = pnm.rou, inclu = FALSE,
#       grid = FALSE, addax = FALSE, cleg = 0, sub = "F1+ROADS", csub = 3)
#     s.value(avijons$xy, jons.ms$li[, 1], pixmap = pnm.veg, inclu = FALSE,
#       grid = FALSE, addax = FALSE, cleg = 0, sub = "F1+TREES", csub = 3)
#     s.value(avijons$xy, jons.ms$li[, 1], pixmap = pnm.eau, inclu = FALSE,
#       grid = FALSE, addax = FALSE, cleg = 0, sub = "F1+WATER", csub = 3)
#     s.value(avijons$xy, jons.ms$li[, 2], pixmap = pnm.rou, inclu = FALSE,
#       grid = FALSE, addax = FALSE, cleg = 0, sub = "F2+ROADS", csub = 3)
#     s.value(avijons$xy, jons.ms$li[, 2], pixmap = pnm.veg, inclu = FALSE,
#       grid = FALSE, addax = FALSE, cleg = 0, sub = "F2+TREES", csub = 3)
#     s.value(avijons$xy, jons.ms$li[, 2], pixmap = pnm.eau, inclu = FALSE,
#       grid = FALSE, addax = FALSE, cleg = 0, sub = "F2+WATER", csub = 3)
#     par(mfrow = c(1, 1))
# }}## End(Not run)