Dear R-sig-phylo,
I have been working with a mammalian phylogeny I recently downloaded from
VertLife (http://vertlife.org/phylosubsets/). Unfortunately, the phylogeny
is missing a large number of species, so I am trying to manually add these
taxa to the phylogeny. I have a series of 100 trees
Hi Russell,
A package I wrote a while back should be able to do that fairly easily.
https://github.com/eliotmiller/addTaxa The only paper it's described in
remains https://bsapubs.onlinelibrary.wiley.com/doi/full/10.3732/ajb.1500195
It's a wrapper for bind.tip, with some additional stuff. You
Hi Russell:
Glad to hear you’re using the VertLife mammal trees — they are built on a
taxonomy of 5,911 species of which only 4,098 are sampled for DNA, so there is
already a ~30% chunk that is placed using taxonomic constraints and birth-death
branch lengths as sampled during the estimation
