auspice
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Allow aa branch label to be filtered to certain genes only, e.g. spike for SC2
Sometimes it would be good for aa branch labels to be more selective. I'd sometimes like to see only AA substitutions that occur on the spike gene, instead of getting overwhelmed with dozens of numbers.
Spike signal (green) vs noise (black):
It's really hard to mentally parse the long strings sometimes, for example ORF8: S67F
can easily be mistaken for S:
when glancing over at speed.
There two or more ways to implement this, if desired:
- Add an extra branch/tip label property
Spike aa
to the tree during, through a script or maybe duringaugur refine
- Add logic for
auspice
to be able to offer filtered gene aa labels
Currently, auspice has no special logic around branch labels, these are being supplied as a specific branch label in the dataset JSON. As such, I would recommend we modify the ncov pipeline to produce a spike-specific branch labelling.