add fit_seromodel_optimization function - Githubissues

epiverse-trace / serofoi

Estimates the Force-of-Infection of a given pathogen from population based sero-prevalence studies

https://epiverse-trace.github.io/serofoi/

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add fit_seromodel_optimization function #189

Open rccreswell opened 4 months ago

rccreswell commented 4 months ago

Please check if the PR fulfills these requirements
[x] I have read the CONTRIBUTING guidelines
[x] A new item has been added to NEWS.md
[x] Tests for the changes have been added (for bug fixes / features)
[x] Docs have been added / updated (for bug fixes / features)
[x] Checks have been run locally and pass
What kind of change does this PR introduce? (Bug fix, feature, docs update, ...)

Preliminary work on allowing optimization in addition to MCMC sampling.

What is the current behavior? (You can also link to an open issue here)

Users can infer parameters by MCMC sampling. (See https://github.com/epiverse-trace/serofoi/issues/63, https://github.com/epiverse-trace/serofoi/issues/73 ).

What is the new behavior (if this is a feature change)?

Users can find best fit parameters via rstan::optimizing.

Does this PR introduce a breaking change? (What changes might users need to make in their application due to this PR?)

Should not.

Other information:

Replaces #170