Basic bioinformatics for dummy

[Itay.zemach]

Hello everyone,

My study involove GWAS methods in tomato. I genotyped 109 lines for 7720 SNP markers and I have the results in excel and here is small example:
SNP NAME CHR POSITION sample1 sample2 sample3............

the SNP scores are in IUPAC format.
I want to start GWAS this data together with 70 phenotypes and first thing that I need to know is what is HAPMAP format and how can I do it by myself.
I read that every GWAS algorithm need this first stage.
Please explain it as simple as you can


Thanks,
Itay