I would like to create a data followed by the genotype on each SNP for each individual.
Does someone knows how to get the next followed structure? or Is there any existing tool that provides the below data?
Individuals ID_SPNs Genotype ind_1 rs01 AA ind_1 rs02 TT ind_1 rs03 CC : . ind_2 rs01 AG ind_2 rs02 TC ind_2 rs03 AC : . ind_n rs01 GG ind_n rs02 CC ind_n rs03 AA
I have vcf and plink (bed, fam and bim) format files.
Hopefully someone can give me a hint!