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Fixed rep phi #560

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Merged
merged 6 commits into from
Feb 20, 2024
Merged

Fixed rep phi #560

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8a46c11
bring phi specification in line with scale
sbfnk Feb 14, 2024
7998d04
support and deprecate legacy option
sbfnk Feb 14, 2024
72d4f47
update stan model
sbfnk Feb 14, 2024
ad80dfe
update tests
sbfnk Feb 14, 2024
e007e5e
add news item
sbfnk Feb 20, 2024
dc21eae
add PR number and reviewer
sbfnk Feb 20, 2024
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@sbfnk @seabbs
sbfnk authored and seabbs committed Feb 20, 2024
commit e007e5e513f3c4224458ecbbd5fa9ff351974bc2
1 change: 1 addition & 0 deletions NEWS.md
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* Fixed a bug in the bounds of delays when setting initial conditions. By @sbfnk in #474.
* Added input checking to `estimate_infections()`, `estimate_secondary()`, `estimate_truncation()`, `simulate_infections()`, and `epinow()`. `check_reports_valid()` has been added to validate the reports dataset passed to these functions. Tests are added to check `check_reports_valid()`. As part of input validation, the various `*_opts()` functions now return subclasses of the same name as the functions and are tested against passed arguments to ensure the right `*_opts()` is passed to the right argument. For example, the `obs` argument in `estimate_secondary()` is expected to only receive arguments passed through `obs_opts()` and will error otherwise. By @jamesmbaazam in #476 and reviewed by @sbfnk and @seabbs.
* Added the possibility of specifying a fixed observation scaling. By @sbfnk in #550 and reviewed by @seabbs.
* Added the possibility of specifying fixed overdispersion. By @sbfnk in .

## Model changes

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