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Evol Bioinform Online. 2007 Feb 23;1:47-50.

Arlequin (version 3.0): an integrated software package for population genetics data analysis.

Author information

  • 1Computational and Molecular Population Genetics Lab, Zoological Institute, University of Berne, Baltzerstrasse 6, 3012 Berne, Switzerland. laurent.excoffier@zoo.unibe.ch

Abstract

Arlequin ver 3.0 is a software package integrating several basic and advanced methods for population genetics data analysis, like the computation of standard genetic diversity indices, the estimation of allele and haplotype frequencies, tests of departure from linkage equilibrium, departure from selective neutrality and demographic equilibrium, estimation or parameters from past population expansions, and thorough analyses of population subdivision under the AMOVA framework. Arlequin 3 introduces a completely new graphical interface written in C++, a more robust semantic analysis of input files, and two new methods: a Bayesian estimation of gametic phase from multi-locus genotypes, and an estimation of the parameters of an instantaneous spatial expansion from DNA sequence polymorphism. Arlequin can handle several data types like DNA sequences, microsatellite data, or standard multi-locus genotypes. A Windows version of the software is freely available on http://cmpg.unibe.ch/software/arlequin3.

KEYWORDS:

AMOVA; Computer package; EM algorithm; gametic phase estimation; genetic data analysis; population genetics; spatial expansion

PMID:
19325852
[PubMed]
PMCID:
PMC2658868
Free PMC Article
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