adegenet (version 2.0.1)

nancycats: Microsatellites genotypes of 237 cats from 17 colonies of Nancy (France)

Description

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.

Format

nancycats is a genind object with spatial coordinates of the colonies as a supplementary components (@xy).

Source

Dominique Pontier (UMR CNRS 5558, University Lyon1, France)

References

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

Examples

## 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
# }
# ## End(Not run)