Input tree (Ti)

This mode allows the user to input a species tree. In this case, the command is slightly different:

python3 Zombi.py Ti YourTreeFileInNewick ./Output_folder

This command will translate your tree into a file with the events taken place on it, something used by the other modes of Zombi. If you want to simulate genomes in your own tree, running this command is a prerequisite.

Watch out! Your tree must be ultrametric, otherwise, Zombi has no way to know which species survive till the present time. Zombi does not support multifurcation. Zombi does not support trees with 0 branch-length either.