Hello,

I have calculated genome-wide Fst of SNP loci in 2 populations in Plink which uses VCF-tools's Fst estimator and got the following output :

CHR SNP POS NMISS FST 1 1:58460 58460 5732 -8.33795E-05 1 1:64904 64904 5732 -8.33795E-05 1 1:70728 70728 5731 0.000447608 1 1:77646 77646 5732 2.28393E-05 1 1:87734 87734 5732 0.000235296 1 1:530357 530357 5733 2.29353E-05

The 2 populations had 2059 and 3672 individuals and the output I got is for the total of 5733 individuals. I'm not sure of how to interpret the output. What do the positive and negative values mean? How can I identify genomic selection from the output? When and why do we do bootstrapping?

Any help on how to go about further analysis would be great!

Thank you.