While this discussion covers a lot about colouring and defaults in Auspice, I’ll venture a few more observations based on reading the code and experimenting.
As described in the View Settings,
color_by in the
auspice_config sets the key to use for colouring tips. The possible values are: almost anything mentioned in the colorings config of
auspice_confg and also a few other things provided by default, most notably
gt (Genotype) and
num_date (Sampling Date).
(I say “almost anything” because in my config it seems that
genbank_accession are present in the list of colorings in the
auspice_config but they are not selectable as colourings in the web interface)
Finally here is the list of keys my current build exposes:
clade_membership num_date gt location division country region host age sex author originating_lab submitting_lab recency recency S1_mutations mutational_fitness logistic_growth emerging_lineage current_frequency epiweek