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erikrikarddaniel / magmap

Nextflow (nf-core) workflow for mapping reads to large collections of genomes.
MIT License
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Subset GTDB phylogeny to selected genomes #5

Open erikrikarddaniel opened 3 years ago

erikrikarddaniel commented 3 years ago

Do it in R. One tree for all e.g. MarDB genomes, another for the ones we found in our data.

erikrikarddaniel commented 3 years ago

Handle the different inputs: Either the GTDB phylogenies (Archaea and Bacteria) as they are, or GTDBtk phylos.