Update abstract list - Githubissues

seabbs commented 3 years ago

This PR:

Moves all regional_epinow options into the abstract list definition to enable them to be modified between data sets.
Adds support for fitting against a variable window of data with the default being 12 weeks.
Adds code comments suggesting which bits of the current code base could potentially be deprecated.
Adds support for extracting data from any source (via a generic function) rather than depending on covidregionaldata.

This PR would enable fitting on all national level data using back calculation or moving the Brazil municipality work into this framework. It could also be used to support custom one-off jobs as requested by others.

seabbs commented 3 years ago

Any issues with this? It would be nice to move as much as possible out of the function and into the list definition asap.

seabbs commented 3 years ago

Closed in favour of #162

epiforecasts / covid-rt-estimates

Update abstract list #159