Entering edit mode
3.5 years ago
hkj7
•
0
Hi everyone,
I am new to PLINK and GWAS studies. I am unsure how to write a script to convert my INFO file into a MAP file for an association study between genotype and 1 phenotype. So, first thing: I have an INFO file with information on the SNPs, the ID, position, allele 1 and 2 and Information on the imputation (see below)
rs148087467:60523:T:G 60523 T G 0.001 0.161 0.998 0 -1 -1 -1
--- 10:60684:A:C 60684 A C 0.029 0.713 0.978 0 -1 -1 -1
I want to create a script but have no idea how to convert this into a map file. I understand a MAP file has information on the chromosome code, variant identifier (rs), position/genetic distance (morgans) and base-pair co-ordinates (bp units).
Can someone please help me how to create a script! I am so new to all of this, so I do apologise.
Thank you!
