search

yongzhiyang2012 / WGDdetector

21 stars 10 forks source link

Example of genome with no hybridization #3

Open jensbast opened 4 years ago

jensbast commented 4 years ago

Hi, I was wondering if you tried to run your program on some genome of a species that has no hybridization history. I ask because I tried with some species that are likely no hybrids and still this "late" peak around dS 2 is showing. Might it be that this is binning of higher dS>>2 because of saturation?

yongzhiyang2012 commented 4 years ago

This peak with very large dS usualy reflect the ancient duplication event. You can check it.

jensbast commented 4 years ago

Thanks for the fast reply. Yes, I saw this from the paper.

But still, I wonder how the "negative control" would look like. Did you run a genome that did not have recent or ancient hybridization events?

yongzhiyang2012 commented 4 years ago

All the angiosperms and gymnosperms have undergone the ancient duplications in plants. And the genome duplication is also widely occured within vertebrate, insect and amphibian. So the "negative control" is difficult to achive.