How do I generate .map files that I need to use in Impute2 as input?
I have binary files (bed, bim, fam) that are from PLINK output. Using --recode I get a .ped and .map file but this map file does not work in Impute2 because it does not have the right number of columns. I am willing to use any program to get the .map file, but I'm not sure what my other options are.
Where do you get a .map file