I have GBS, resequencing, and ChiSep data, is it possible/right to combine it to performe a GWA?

Question

[valopes]

Hi all,

I was wondering if I could use GBS data of some genotypes and ChiSeq of other genotypes or resequencing data to do the SNP calling and so GWA for all?

If so, how can I do that? Which parameters should I be careful using to try to sort of normalize all this data?

I know it may be a wide question, but I need to start from something.

Thanks in advance.