atlas {ade4}R Documentation

Small Ecological Dataset

Description

atlas is a list containing three kinds of information about 23 regions (The French Alps) :
geographical coordinates, meteorology and bird presences.

Usage

data(atlas)

Format

This list contains the following objects:

area
is a convex hull of 23 geographical regions.
xy
are the coordinates of the region centers and altitude (in meters).
names.district
is a vector of region names.
meteo
is a data frame with 7 variables: min and max temperature in january; min and max temperature in july; january, july and total rainfalls.
birds
is a data frame with 15 variables (species).
alti
is a data frame with 3 variables altitude in percentage [0,800], ]800,1500] and ]1500,5000].

Source

Extract from:
Lebreton, Ph. (1977) Les oiseaux nicheurs rhonalpins. Atlas ornithologique Rhone-Alpes. Centre Ornithologique Rhone-Alpes, Université Lyon 1, 69621 Villeurbanne. Direction de la Protection de la Nature, Ministère de la Qualité de la Vie. 1–354.

Examples

data(atlas)
op <- par(no.readonly = TRUE) 
par(mfrow = c(2,2))
area.plot(atlas$area, cpoin = 1.5)
area.plot(atlas$area, lab = atlas$names.district, clab = 1)
x <- atlas$meteo$mini.jan

names(x) <- row.names(atlas$meteo)
area.plot(atlas$area, val = x, ncl = 12, sub = "Temp Mini January", 
    csub = 2, cleg = 1)
s.corcircle((dudi.pca(atlas$meteo, scann = FALSE)$co), 
    clab = 1)

area.plot(atlas$area, val = dudi.pca(atlas$meteo,scann=FALSE)$li[,1], 
    ncl = 12, sub = "Principal Component Analysis analysis", csub = 1.5, 
    cleg = 1)
birds.coa <- dudi.coa(atlas$birds, sca = FALSE, nf = 1)
x <- birds.coa$li$Axis1
area.plot(atlas$area, val = x, ncl = 12, 
    sub = "Correspondence analysis", csub = 1.5, cleg = 1)

s.value(atlas$xy, x, contour = atlas$contour, csi = 2, 
    incl = FALSE, addax = FALSE)
triangle.plot(atlas$alti)
par(op)
par(mfrow=c(1,1))

Worked out examples


> library(ade4)
> ### Name: atlas
> ### Title: Small Ecological Dataset
> ### Aliases: atlas
> ### Keywords: datasets
> 
> ### ** Examples
> 
> data(atlas)
> op <- par(no.readonly = TRUE) 
> par(mfrow = c(2,2))
> area.plot(atlas$area, cpoin = 1.5)
> area.plot(atlas$area, lab = atlas$names.district, clab = 1)
> x <- atlas$meteo$mini.jan
> 
> names(x) <- row.names(atlas$meteo)
> area.plot(atlas$area, val = x, ncl = 12, sub = "Temp Mini January", 
+     csub = 2, cleg = 1)
> s.corcircle((dudi.pca(atlas$meteo, scann = FALSE)$co), 
+     clab = 1)
> 
> area.plot(atlas$area, val = dudi.pca(atlas$meteo,scann=FALSE)$li[,1], 
+     ncl = 12, sub = "Principal Component Analysis analysis", csub = 1.5, 
+     cleg = 1)
> birds.coa <- dudi.coa(atlas$birds, sca = FALSE, nf = 1)
> x <- birds.coa$li$Axis1
> area.plot(atlas$area, val = x, ncl = 12, 
+     sub = "Correspondence analysis", csub = 1.5, cleg = 1)
> 
> s.value(atlas$xy, x, contour = atlas$contour, csi = 2, 
+     incl = FALSE, addax = FALSE)
> triangle.plot(atlas$alti)
> par(op)
> par(mfrow=c(1,1))
> 
> 
> 

[Package ade4 Index]