Compare to other libs

[jeromekelleher]

WIP

Notes:

1. Biopython is slow
2. The phangorm method is really very quick, but uses a lot of memory. Not quite sure what it's doing yet.
3. I really hate trying to program in R

[petrelharp]

I really hate trying to program in R

I love R but hate the phylogenetics packages. That said, feel free to give me some R-related tasks.

[petrelharp]

A tough competitor would probably be castor (source code here):

The author is here, so I could ask for assistance if we want. I'm not sure if it does the things we want to compare to, though? Some things it does in the overlap are: count_tips_per_node; find_farthest_tip_pair; get_all_distances_to_root; get_mrca_of_set; get_pairwise_mrcas; hsp_max_parsimony; asr_max_parsimony.

[jeromekelleher]

Very interesting, thanks @petrelharp. It would be good to try this out - I'll created issue #14 to track.