how to find the ancestor sequence of a molecular phylogenetic tree?
I want to find the ancestor of each sequence in my phylogenetic tree,is there any package can be used in perl or python? My tree file is nwk format and I don't need to consider the branch length. Perl package is better because I'm more good at it.Thank you very much!
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You mean the last shared common ancestor in relation to some other sequence in your tree?
yes,I think I just need the last common ancestor.Could you please give me some suggestion? thank you!
I suggest you have a look at the tree. Last common ancestor is always relative to other taxa. For example, if I had a tree with 4 leaves: human, chimp, chicken, and e. coli, what would be the last common ancestor of human? The question makes no sense. Sensible questions would include: 1) what is the last common ancestor of human and chimp? 2) what is the last common ancestor of human and chicken; 3) what is the last common ancestor of human and e.coli. I hope you understand the point I am trying to make. Perhaps you are not looking for the last common ancestor but the nearest phylogenetic neighbor?