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I am trying to construct a phylogenomic tree in ggtree, and would like to present a few different versions. The tree was constructed using IQTree, and the UFBoot and SHaLRT values are stored as a list of characters called "node.label".

I have constructed a cladogram, and colored the node tips based on which of three species categories the sequences belong to. However, I am unable to do the following:

  1. I would like to label the internal nodes with the corresponding UFBoot/SHaLRT (BS) values (e.g. 97/100).

  2. If possible, I would also like to make a second version in which I modify nodes to indicate 3 levels:

e.g. hollow circle = UFBoot/SHaLRT below threshold, gray circle= 1 test passed, black circle = both tests passed.

So far I have tried making a dataframe with all the BS values and trying:

  geom_text2(aes(subset=!isTip, label=node), hjust=-.3) + 
     # Label with internal node numbers

But I always get an error saying the lengths of the labels and nodes don't match.

kjetil b halvorsen
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Metin Gabriel Davutoglu
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  • Please provide a [Minimal, Reproducible Example](https://stackoverflow.com/help/minimal-reproducible-example), so that we can replicate the error. – nya Jul 18 '23 at 11:57

0 Answers0