The current issue of Nature Review Genetics has a nice article by Laurent Excoffier and Gerald Heckel reviewing the various software packages available for analysis of population genetic data, the analyses each performs, and the assumptions underlying the analyses. To see the full text of the article, you have to register (it's free), but I've uploaded a PDF so that you don't have to register. To avoid copyright problems, it will only be accessible within the UConn.Edu domain.
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