What does structure of GWAS data look like?

Question

[areyoujokingme]

I just realized I have NEVER seen GWAS data. I talk about it all the time and study results from many GWAS studies, but I don't know what the data matrix looks like for this. Can someone give me some idea of the structure of GWAS data? All datasets I am aware of are protected/private. I don't need a dataset - just want to be able to describe the data to someone in the elevator, etc.

Thanks for your thoughts!

[Sam]

Do you want to see how the genotype data is represented or do you want to "see" the whole analysis pipeline?

[areyoujokingme]

I want to understand and be able to describe what the raw data looks like. The whole analysis pipeline wouldn't hurt me, honestly (haha)! Do you have any ideas?

[Sam]

If you only want to know how the raw data "looks" like, you can either download the hapmap samples (plink format) or you can look into this post: Publicly Available, Individual-Level, Gwas Data? those resources might provide you a starting point.

However, I am uncertain how the data looks like before the plink kicks in. Hopefully someone else can show you those