I want remove some snp from map and also genotype from ped file. I used this command in plink:
plink --file FILE --exclude SNP-LIST-FILE
I think the some SNP in map file should be deleted and also genotype in ped, but when I check the number of raw in map and the column of ped file its same as before exclude
is there any one know my snp in snplist excluded or not?