Tweak tip_frequencies arguments [#33]

[genehack]

Description of proposed changes

Updating per @huddlej's advice

• remove max_date
• reduce narrow_bandwidth to 1 month
• reduce wide_bandwidth to 3 months
• add proportion_wide argument

New builds uploaded to staging

Related issue(s)

Closes #33

Checklist

• Checks pass

[huddlej]

Nice! The only other change I'd recommend trying is to add a config parameter/frequencies argument for the pivot interval (--pivot-interval) and set the value to 1. The default pivot interval is 3 months which is part of why the builds on staging have such quick transitions between high and low frequency lineages without any intermediate states.

The H3N2 HA 6-year build shows a similar time span but using a 1-month pivot interval which gives you more resolution. The flu dataset has >15 times as many samples as the YFV dataset, so you'll probably still get noisier estimates at the monthly intervals than you see in the flu data.

[genehack]

Nice! The only other change I'd recommend trying is to add a config parameter/frequencies argument for the pivot interval (--pivot-interval) and set the value to 1. The default pivot interval is 3 months which is part of why the builds on staging have such quick transitions between high and low frequency lineages without any intermediate states.

Ah, thanks, that did help smooth things out a bit — the staging builds have been updated.