My goal is to downgrade plink(.bed, bim, fam) data from the 38th build to 37. What is the easiest way to do this?
I was reading liftOver documentation and I am confused. Because it only accepts its own .bed format to do the lifting. It looks like I can prepare such a file, from plink bim, but what with the rest plink files, bed, and fam? Are they not require any modification? Also if I were to create a liftOver bed file, I notice that there are two coordinates for each SNP:
chr1 743267 743268 rs3115860 chr1 766408 766409 rs12124819 chr1 773885 773886 rs17160939
And there is only one coordinate in the plink .map file, how do I convert my map file?