how to get common variants between two species?
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6.4 years ago
kk.mahsa ▴ 140

i have sequencing data for two species, that they are able to mate together. now i want to extract common variants between them. To do this, must i map two data set in one reference genome or there are other ways?

thanks in advance

SNP next-gen common variant • 1.1k views
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6.4 years ago
tiago211287 ★ 1.5k

I've never done this, but I would try starting looking for the conserved synteny between them. There is a bunch of tools constructed for this purpose. After finding those conserved regions, you could analyze to find the variants. This question has been discussed also here and here.

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thanks but this is not what i want

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