Join two trees (add one tree at the tip of the other)

[Erica Fary]

Dear all,

I am working on phylogenies by using DendroPy (thank you for this amazing library!). Now I have to import 2 trees in Newick format (this is obviously not the difficult part) and join them together, more precisely I have to add one tree at one tip/leaf of another (this is the difficult part). I have tried with add_child and new_child methods but without success.

Can anyone indicate how I could proceed ? Any help is welcome...

Thank you in advance.

[Jeet Sukumaran]

The basic logic would indeed be using ``add_child``, passing in the seed
node of the second tree as the node to be added.

Other issues that you might have to deal with would be taxon management.

A basic approach would be:

~~~
tns = dendropy.TaxonNamespace()
tree1 = dendropy.Tree.get(
path="tree1.tre",
schema="newick",
taxon_namespace=tns)
tree2 = dendropy.Tree.get(
path="tree2.tre",
schema="newick",
taxon_namespace=tns)
nd = tree1.find_node(...)
nd.add_child(tree2.seed_node)
~~~

It would probably be useful for you to post a minimum self-contained
example for what you tried, and what did not work.

-- jeet

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[Erica Fary]

Thank you so much for your quick reply !!

Newbie's mistake: I wrote nd.add_child(tree2) instead of [...](tree2.seed_node). Now it works !

Thank you again and best regards.

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