Creating a Character Table (Finished!)

The approach I wrote about in my last post turned out to be a lot harder to implement than I initially thought, and I actually never made it past the step of splitting the tree into the possible sub-trees. After bashing my head against the problem a bit too long, I decided to try a different approach, using Biopython. The Phylo module of Biopython has a method for parsing trees in Newick format, and by using this I was also able to extract internal and external nodes of the tree in a much easier way than in my initial approach. The final version of my code can be found here on my GitHub, along with the problem description and some sample data files.