Make and visualise weekly forecasts

[sophiemeakin]

Add functionality to aggregate daily forecasts to weekly forecasts, and visualise.

I've implemented this in a separate project, so minimal extra work 🎉 In summary:

• The aggregation step takes the output from EpiNow2::regional_epinow, aggregates samples from days to weeks (using specified week_start) and then summarises using specified quantiles (could fix this to median and 20%, 50% and 90% quantiles to match current summary).
• Visualisation takes weekly summary. Any week where at least one day is forecasted is classified as "forecast", and any other week where at least one day is estimated based on partial data is classified as "estimate based on partial data"; otherwise classified as "estimate". Plots is a very similar style to the current EpiNow2 visualisations, but includes the current (incomplete) week of observed data.

Happy to discuss!

[seabbs]

Hi Sophie,

As we discussed I like this and it would be interesting to enable it as a postprocessing option. Do you have the code you used for this in the public domain somewhere? Anything pulled from it will obliviously be acknowledged and linked back.

[sbfnk]

I've put the relevant functions into a gist: https://gist.github.com/sbfnk/5f3c3281abad80c4b3cd5b7d39e0c95a for future integration here.

I hope that's OK, @sophiemeakin (please do say if not) - have added you as an author in the function roxygen block.

[sophiemeakin]

Aye aye, all good with me! 👍🏻🙂