Requires that otcetera tools be in your PATH.

The only artifact is:

• full_supertree.tre: A newick tree file containing a single tree

This tool adds in the "missing" taxa in the optimal position: if a taxon that was pruned maps to a branch in the grafted tree, it should go there. But if the branch does not occur in the grafted tree, the taxon should be attached in a polytomy with the MRCA of its sibling taxa.

otc-unprune-solution ../grafted_solution/grafted_solution.tre ../cleaned_ott/cleaned_ott.tre > full_supertree/full_supertree.tre