I have a variety of (microsatellite) data sets for different species and want to compare their mean genetic diversity, i.e. their mean number of alleles per locus. This is dependent on the sample size in every data set. Does anyone know a good way to standardize the mean number of alleles to make them comparable across datasets? Preferably already implemented in an R package or possible to implement myself. Thanks!
Dear Martin
Standard Error of the mean give good standardization for the sample size ( interval estimation of the population mean ), please see the case in the following link:
https://www.researchgate.net/figure/5506598_fig5_Figure-4-Mean-number-of-alleles-standardized-to-a-sample-size-of-10-r10-found-in
Good Luck
Hi Martin,
If you look for genetic indexes and diversity you can use geneAlex sowfware linked below or GenePop online software for more details... Good luck
http://biology-assets.anu.edu.au/GenAlEx/Welcome.html
Also you can follow the question in ResarchGate linked below may useful for you.
Regards,
Ali
https://www.researchgate.net/post/Recommended_software_for_generating_genetic_datasets_for_individuals_in_different_spatial_scenarios
A stated by Marty, you may look at allelic richness with rarefaction method. You may loss power however if some of your sample size are very small. Alternatively, you can check the method described here http://www.livestockscience.com/article/S0301-6226(05)00392-1/abstract
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