annotated tree read_nexus_phylo

[damientully]

Hi,

I am using the read_nexus_phylo command. It is definitely much faster than other similar commands for reading in big phylo trees. But I was wondering if it could take annotated information contained within a tree such as
Begin Trees; Tree tree1=((USA_CA_SCCPHD_UC183_2020:0.00008[&location="North America"],((Singapore_24_2020:0.00004[&location="Asia"],

[fmichonneau]

Hi, thanks for your question.
The rncl relies on the NEXUS Class Library which intends to stick closely to the NEXUS file specifications. These specifications say that anything in square brackets is a comment. While it's possible that there are some internal ways for NCL to parse annotations in square brackets, it's currently not implemented/accessible to the R package. I would happily consider a pull request if it's something you wanted to work on.