**40**wrote:

Having calculated pairwise Fst values with vcftools, I now need to find the threshold for outlier loci. I've decided to follow the second suggestion from an answer of this thread: Calculating statistically significant outlier for Pairwise Fst obtained from VCFTools which is:

"2. Permute your genotypes and re-run Fst many times. This would be considered an empirical p-value, or probability."

Since I am having no statistical background, would there be a simple explanation on how to implement this?

**10**• written 5.7 years ago by Earendil •

**40**