Question: Some problems about CODEML
gravatar for Ginsea Chen
4.9 years ago by
Ginsea Chen130
Chinese Academy of Tropical Agricultural Sciences, Danzhou, China
Ginsea Chen130 wrote:

Dear All !

I tried to use codeml to detect positive selection sites along my interested branches (thereafter these branches). First, I performed "two-ratio" model (branch model) analysis with setting these branches as foreground branch. The LRT statistics showed that "two-ratio" model differ significantly with "one-ratio" model, and omega value of foreground was higher than 1 (about 2.5). So I concluded that these branches evolved under positive selection pressures. While I have no positive selection sites identified by using branch site model analysis with setting these branches as foreground branch, and correspondent LRT statistics result was non-significant (Model A vs Model A null). I don't know how to explain this result. If you have some suggestions, please tell me.

Thanks all.

ADD COMMENTlink modified 3 months ago by Biostar ♦♦ 20 • written 4.9 years ago by Ginsea Chen130
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