Q: How do I proceed if the genome-scale phylogeny is not well resolved?
For very diverse datasets of strains, the average branch support, even of the genome-based phylogeny,
might be too low which is not unlikely for such datasets. In general, if certain parts in any given
phylogeny are not well resolved (i.e. low branch support), these parts are not interpretable.
In case of the TYGS, an optional proteome-based GBDP analysis will become available on user request
if the dataset is not too large (< 30 strains) and the average branch support of the genome-based
tree is smaller than 60%. If these conditions are met, you will find an order button on the respective
TYGS result page below the phylogenies table.