R: Genetic Relationships between cattle breeds with...

microsatt {ade4} | R Documentation

## Genetic Relationships between cattle breeds with microsatellites

### Description

This data set gives genetic relationships between cattle breeds with microsatellites.

### Usage

    data(microsatt)

### Format

`microsatt` is a list of 4 components.

tab

  contains the allelic frequencies for 18 cattle breeds (Taurine or Zebu,French or African) and 9 microsatellites.

loci.names

  is a vector of the names of loci.

loci.eff

  is a vector of the number of alleles per locus.

alleles.names

  is a vector of the names of alleles.

### Source

Extract of data prepared by D. Laloë ugendla@dga2.jouy.inra.fr from data used in:

Moazami-Goudarzi, K., D. Laloë, J. P. Furet, and F. Grosclaude (1997) Analysis of genetic relationships between 10 cattle breeds with 17 microsatellites. Animal Genetics, 28, 338–345.

Souvenir Zafindrajaona, P.,Zeuh V. ,Moazami-Goudarzi K., Laloë D., Bourzat D., Idriss A., and Grosclaude F. (1999) Etude du statut phylogénétique du bovin Kouri du lac Tchad à l'aide de marqueurs moléculaires. Revue d'Elevage et de Médecine Vétérinaire des pays Tropicaux, 55, 155–162.

Moazami-Goudarzi, K., Belemsaga D. M. A., Ceriotti G., Laloë D. , Fagbohoun F., Kouagou N. T., Sidibé I., Codjia V., Crimella M. C., Grosclaude F. and Touré S. M. (2001)
Caractérisation de la race bovine Somba à l'aide de marqueurs moléculaires. Revue d'Elevage et de Médecine Vétérinaire des pays Tropicaux, 54, 1–10.

### References

See a data description at http://pbil.univ-lyon1.fr/R/pdf/pps055.pdf (in French).

### Examples

    ## Not run:
    data(microsatt)
    fac <- factor(rep(microsatt$loci.names, microsatt$loci.eff))
    w <- dudi.coa(data.frame(t(microsatt$tab)), scann = FALSE)
    wit <- wca(w, fac, scann = FALSE)
    microsatt.ktab <- ktab.within(wit)

    plot(sepan(microsatt.ktab)) # 9 separated correspondence analyses
    plot(mcoa(microsatt.ktab, scan = FALSE))
    plot(mfa(microsatt.ktab, scan = FALSE))
    plot(statis(microsatt.ktab, scan = FALSE))

    ## End(Not run)

[Package ade4 version 1.7-8 Index]