Question: variants collapsing for GWAS
gravatar for reds.nik
2.8 years ago by
reds.nik40 wrote:

Good afternoon to everybody, I am working on whole genome seq data and I am trying to figure out which is a good window size to collapse variants accross the gnome in order to run a GWAS. I see from literature that there is no consensus. Someone collapses by a fixed SNP number and someone else by fixed windows size. At this stage i don't want to collpase variants by functional regions beacuse I need to cover the whole genome, so I was wondering if anyone could suggest me which could be a good window size or If you know any good paper about that. thanks

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