OMA output document error

Question

[Yong]

Hi all,

I tried to use OMA to screen homologous genes, but there was a problem during the operation. I found out that outgroupspecies needs to be established when using OMA. I tried to select multiple different outgroupspecies, but the following error occurred.Can you give me a little detailed guidance?

......
271 orthologous groups after Filtering=BestDimless, AveVarWeighted, Class
dimensionless fitting index 3.116
Error, (in RerootWithOutgroups) 
defined outgroup set does not form a monophyletic clade

Answer 1

[clement.train]

Hi,

It seems that your outgroup set of species is not monophyletic (https://en.wikipedia.org/wiki/Monophyly). Can you provide a bit more of information about your OMA inputs/parameters in order to help you find a valid outgroup ?

Thx, Clement