I have SNP IDS like these, where the last two columns denote the alleles. I would appreciate any suggestions of how to rename them. I am confused as to why it has a T-C alleles but then in the actual allele columns it has 0 and A?
23 X:77378693-T-C 0 78123196 0 A
23. X:22112123-T-C 0 22094005 0 A
For other IDs, it the T-A corresponds to the allele codes. I am not sure if I should take the allele codes as they are (e.g., 0 and the other allele) or whether I need to look at the rsid column to deduce it but it doesn't
23. X:22112198-T-A 0 22094080 A T