A step-by-step tutorial to use HierFstat to analyse populations hierarchically structured at multiple levels

Infection, Genetics and Evolution

Volumn 7, Issue 6, 2007, Pages 731-735

  de Meeûs, Thierry ^a   Goudet, Jérôme ^b  

^a INSTITUT DE RECHERCHE POUR LE DÉVELOPPEMENT   (France)

^b UNIVERSITY OF LAUSANNE   (Switzerland)

Author keywords

Fixation indices; Hierarchy; Population structure

Indexed keywords

ARTICLE; COMPUTER ANALYSIS; COMPUTER PROGRAM; CONTROLLED STUDY; GENE LOCUS; HAPLOIDY; INFORMATION PROCESSING; MICROBIAL POPULATION DYNAMICS; MICROBIOLOGICAL EXAMINATION; POPULATION BIOLOGY; POPULATION STRUCTURE; PRIORITY JOURNAL; STATISTICAL ANALYSIS;

GENETICS, POPULATION; SOFTWARE;

EID: 35548981839     PISSN: 15671348     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.meegid.2007.07.005     Document Type: Article

References (15)

1. Caillaud D., Prugnolle F., Durand P., Théron A., and De Meeûs T. Host sex and parasite genetic diversity. Microbes Infect. 8 (2006) 2477-2483
2. De Meeûs T., Humair P.F., Delaye C., Grunau C., and Renaud F. Non-Mendelian transmission of alleles at microsatellite loci: an example in Ixodes ricinus, the vector of Lyme disease. Int. J. Parasitol. 34 (2004) 943-950
3. Dalgaard P. Introductory Statistics with R (2002), Springer, New York
4. Excoffier L., and Heckel G. Computer programs for population genetics data analysis: a survival guide. Nat. Rev. Genet. 7 (2006) 745-758
5. Fisher R.A. Statistical Methods for Research Workers. 14th ed. (1970), Oliver and Boyd, Edinburgh
6. Goudet J. FSTAT (vers. 1. 2): a computer program to calculate F-statistics. J. Hered. 86 (1995) 485-486
7. Goudet J. An improved procedure for testing the effects of key innovations on rate of speciation. Am. Nat. 153 (1999) 550-555
8. Goudet J. Hierfstat, a package for R to compute and test hierarchical F-statistics. Mol. Ecol. Notes 5 (2005) 184-186
9. Johannesson K., and Tatarenkov A. Allozyme variation in a snail (Littorina saxatilis)-deconfounding the effects of microhabitat and gene flow. Evolution 51 (1997) 402-409
10. Nagylaki T. Fixation indices in subdivided populations. Genetics 148 (1998) 1325-1332
11. Nébavi F., Ayala F.J., Renaud F., Bertout S., Eholié S., Koné M., Mallié M., and De Meeûs T. Clonal population structure and genetic diversity of Candida albicans in AIDS patients from Abidjan (Côte d'Ivoire). Proc. Natl. Acad. Sci. U.S.A. 103 (2006) 3663-3668
12. R Development Core Team, 2007. R: a language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. URL http://www.R-project.org, ISBN 3-900051-07-0.
13. Weir B.S., and Cockerham C.C. Estimating F-statistics for the analysis of population structure. Evolution 38 (1984) 1358-1370
14. Wright S. The genetical structure of populations. Ann. Eugen. 15 (1951) 323-354
15. Yang R.C. Estimating hierarchical F-statistics. Evolution 52 (1998) 950-956