Microsatellites genotypes of 237 cats from 17 colonies of Nancy (France)
This data set gives the genotypes of 237 cats (Felis catus L.) for 9 microsatellites markers. The individuals are divided into 17 colonies whose spatial coordinates are also provided.
nancycats is a genind object with spatial coordinates of the
colonies as a supplementary components (@xy).
Dominique Pontier (UMR CNRS 5558, University Lyon1, France)
Devillard, S.; Jombart, T. & Pontier, D. Disentangling spatial and genetic structure of stray cat (Felis catus L.) colonies in urban habitat using: not all colonies are equal. submitted to Molecular Ecology
## Not run:
data(nancycats)
nancycats
# summary's results are stored in x
x <- summary(nancycats)
# some useful graphics
barplot(x$loc.n.all,ylab="Alleles numbers",main="Alleles numbers
per locus")
plot(x$pop.eff,x$pop.nall,type="n",xlab="Sample size",ylab="Number of alleles")
text(x$pop.eff,y=x$pop.nall,lab=names(x$pop.nall))
par(las=3)
barplot(table(nancycats@pop),ylab="Number of genotypes",main="Number of genotypes per colony")
# are cats structured among colonies ?
if(require(hierfstat)){
gtest <- gstat.randtest(nancycats,nsim=99)
gtest
plot(gtest)
dat <- genind2hierfstat(nancycats)
Fstat <- varcomp.glob(dat$pop,dat[,-1])
Fstat
}
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