Hi all,
I am using Beast V.1.10.4 for divergence time analysis. I think there is a problem with the resulted tree: the outgroups which are monophyletic in previous phylogenetic studies are placed as sister groups in final tree. let me explain more, assume A as a monophyletic group while B is its outer group and monophyletic. these tow groups, A and B, place as sister group in my dating tree. it could be considered as a defect in my analysis? how can I fix it?
*I am sure about my alignment because i did a Bayesian analysis with same data set and the outgroups are placed as monophyletic groups.
thanks for helping.