comparison of divergence with different markers

Question

[outlier95]

I simply want to compare genetic divergence between two populations using two different marker types, microsatellites and snps. What would be a suggested approach? I realize there are probably several ways to go about this, but any general idea would be great. Thanks.

[second_exon]

As @microfuge mentioned, Fst between populations is a good measure. Also, try structure program, it gives an idea about gene flow between populations and also calculates genetic distance between populations.

[microfuge]

Fst is a good measure of differentiation between populations

[microfuge]

I would highly recommend the software Arlequin. I can calculate diverse array of statistics for microsat data and is made by the experts in the field. http://cmpg.unibe.ch/software/arlequin35/

Answer 1

[Brice Sarver]

• Fst (as above) and other F statistics, including their allelic analogs
• uncorrected genetic distances
• corrected genetic distances
• IM/IMa/IMa2
• Migrate
• LAMARCK

among many others.

[outlier95]

Thanks! Very helpful information.