Hi all, I am a little confused about how to calculate FDR after permutation F test.
Assume there is 6000 genes in my data. And for each gene, I perform 1000 permutation F test and got 1000 F value, which includes 1 original F value and 999 permutating F value. And p-value = sum(F > F-original)/1000.
But I am confused how to calculate FDR? I think it should be FDR = False positive gene number/ gene with Permutation p < 0.05 number.
Thank you in advance:)