dear Chrystelle Delord

I suggest used Structure software

https://web.stanford.edu/group/pritchardlab/structure.html

Dear Chrystelle

Please, read in the following link, I hope will be useful for you.

http://www.p3g.org/biobank-toolkit/genetic-power-calculator

and

Article Sample Size and Statistical Power Calculation in Genetic Ass...

Good Luck​

Thank you very much to both of you for your answers!

Mostafa, unfortunately I am afraid that STRUCTURE, though it will enable to estimate allele frequencies and by extension the polymorphism rate, will not actually give me a uncertainty range around the estimate of P (or am I missing something?).

Khalid, thank you very much for this very interesting link and paper, unfortunately I already have all the markers and samples I could gather and now I just have to deal with it, whatever the statistical power might be. Most of time in classical population genetics in wild populations, people use microsatellites and a rarefaction procedure to correct for sample size when estimating allelic richness.

I just wanted to apply something similar to my small-number-of-SNPs dataset when calculating polymorphisms rate, but in the end, it seems like I will either have to keep my single P95 value per population, or to implement a re-sampling procedure (with R for instance) to get confidence interval for each population.

Thank you so much for answering me! I wish you a very nice week,

All the best!

Chrys

dear Chrystelle Delord

this software may can be useful for your research.

https://brcwebportal.cos.ncsu.edu/powermarker/downloads/Manual.pdf