possum {DAAG}R Documentation

Possum Measurements

Description

The possum data frame consists of nine morphometric measurements on each of 104 mountain brushtail possums, trapped at seven sites from Southern Victoria to central Queensland.

Usage

possum

Format

This data frame contains the following columns:

case
observation number
site
one of seven locations where possums were trapped
Pop
a factor which classifies the sites as Vic Victoria, other New South Wales or Queensland
sex
a factor with levels f female, m male
age
age
hdlngth
head length
skullw
skull width
totlngth
total length
taill
tail length
footlgth
foot length
earconch
ear conch length
eye
distance from medial canthus to lateral canthus of right eye
chest
chest girth (in cm)
belly
belly girth (in cm)

Source

Lindenmayer, D. B., Viggers, K. L., Cunningham, R. B., and Donnelly, C. F. 1995. Morphological variation among columns of the mountain brushtail possum, Trichosurus caninus Ogilby (Phalangeridae: Marsupiala). Australian Journal of Zoology 43: 449-458.

Examples

boxplot(earconch~sex, data=possum)
pause()

sex <- as.integer(possum$sex)
oldpar <- par(oma=c(2,4,5,4))
pairs(possum[, c(9:11)], pch=c(0,2:7), col=c("red","blue"),
  labels=c("tail\nlength","foot\nlength","ear conch\nlength"))
chh <- par()$cxy[2]; xleg <- 0.05; yleg <- 1.04
oldpar <- par(xpd=TRUE)  
legend(xleg, yleg, c("Cambarville", "Bellbird", "Whian Whian  ",
  "Byrangery", "Conondale  ","Allyn River", "Bulburin"), pch=c(0,2:7),
  x.intersp=1, y.intersp=0.75, cex=0.8, xjust=0, bty="n", ncol=4)
text(x=0.2, y=yleg - 2.25*chh, "female", col="red", cex=0.8, bty="n")
text(x=0.75, y=yleg - 2.25*chh, "male", col="blue", cex=0.8, bty="n")
par(oldpar)
pause()

sapply(possum[,6:14], function(x)max(x,na.rm=TRUE)/min(x,na.rm=TRUE))
pause()

here <- na.omit(possum$footlgth)
possum.prc <- princomp(possum[here, 6:14])
pause()

plot(possum.prc$scores[,1] ~ possum.prc$scores[,2],
  col=c("red","blue")[as.numeric(possum$sex[here])],
  pch=c(0,2:7)[possum$site[here]], xlab = "PC1", ylab = "PC2")
  # NB: We have abbreviated the axis titles
chh <- par()$cxy[2]; xleg <- -15; yleg <- 20.5
oldpar <- par(xpd=TRUE)
legend(xleg, yleg, c("Cambarville", "Bellbird", "Whian Whian  ",
  "Byrangery", "Conondale  ","Allyn River", "Bulburin"), pch=c(0,2:7),
  x.intersp=1, y.intersp=0.75, cex=0.8, xjust=0, bty="n", ncol=4)
text(x=-9, y=yleg - 2.25*chh, "female", col="red", cex=0.8, bty="n")
summary(possum.prc, loadings=TRUE, digits=2)
par(oldpar)
pause()

require(MASS)
here <- !is.na(possum$footlgth)
possum.lda <- lda(site ~ hdlngth+skullw+totlngth+ taill+footlgth+
  earconch+eye+chest+belly, data=possum, subset=here)
options(digits=4)
possum.lda$svd   # Examine the singular values   
plot(possum.lda, dimen=3)
  # Scatterplot matrix - scores on 1st 3 canonical variates (Figure 11.4)
possum.lda

[Package DAAG version 0.76 Index]