DiseasystoreBase$key_join_features() no longer accept character stratifications -- must use rlang::quos() (#203).The $observable_regex field is added, which shows the regex that demarcates observables from stratifications (#204).
Improved clean up of temporary tables (#207).
Tables created internally in diseasystore are now labelled and removed when no longer needed.
In DiseasystoreBase$key_join_features(), stratifications no longer need to do computation on other features (#203).
...) are now passed to the ?FeatureHandler$compute() and ?FeatureHandler$get()
functions in ?FeatureHandler (#162).
Furthermore, a reference to the diseasystore is now passed to ?FeatureHandler$compute() as ds to give the
?FeatureHandler access to other features via ?DiseasystoreBase$get_feature().New age helpers add_years() and age_on_date() has been added to help compute features for individual data (#125).
Added the fields ?DiseasystoreBase$available_observables and ?DiseasystoreBase$available_features for easier
overview (#139).
The data availability period for each diseasystore is now exposed via the ?DiseasystoreBase$min_start_date and
?DiseasystoreBase$max_end_date fields (#138).
diseasystores can now have variable backend support (#175).
In case a backend is insufficient to support the computations, the backend can be blocked for the diseasystore.
test_diseasystore() now have a skip_backend argument to skip tests for the disallowed backends.
Added the ?DiseasystoreSimulist which implements a synthetic, individual-level, data set generated with simulist.
A bug was fixed where data was duplicated when features were not divided into separate tables (#192).
Two bugs were fixed in ?DiseasystoreBase$determine_new_ranges() where existing tables were not detected:
Long stratification expression are now properly parsed in ?DiseasystoreBase$key_join_features() (#161).
When creating your own diseasystore it is now easier to inherit from the base module (#189).
When creating your own diseasystore it is now easier to inherit from the base module (#189).
Warnings about existing stratifications now only appear if the requested stratification contains a named expression matching an existing stratification. Simply requesting the stratification from the feature store will no longer produce a warning (#192).
test_diseasystore() now also checks the ?FeatureHandler return data directly:
An example has been added for building a diseasystore with individual level data (#162).
See vignette("extending-diseasystore-example").
Added benchmarking vignette vignette("benchmarks") (#144).
diseasyoption() can now be called without the option argument to return all diseasy/diseasystore options (#159).
In addition, a new namespace argument can restrict the option look-up to a specific package (e.g. diseasystore).
%.% operator is made more flexible to function as a drop-in replacement for $ (#145).{SCDB} v0.3 is removed.?DiseasystoreEcdcRespiratoryViruses: A feature store that uses the ECDC Respiratory viruses weekly repository (#124).
With the release of {SCDB} v0.4, we now support more database backends:
test_diseasystore() is added to provide a standardised method for testing new diseasystores (#123).
diseasyoption() now allows a default option to be set with the .default argument (#122).Improved the stability of internal functions.
Adapted to release of {SCDB} v0.3.
Improved test stability when internet is unavailable.
Reduced the data footprint during tests.
?DiseasystoreBase: A base class for the diseasystores.
?DiseasystoreGoogleCovid19: A feature store that uses the Google COVID-19 Open Data repository.
?FeatureHandler: A simple class to handle individual feature computations.
Aggregators: A set of aggregators for the ?FeatureHandler to use.
drop_diseasystore(): A function to remove data from a feature store.
Added a informative operator to access data %.%.
NULL if element does not exist.age_labels(): A function to generate human-readable and sortable age groupings.
The functions are fully documented.
Vignettes for the use of the package is included.
vignette("quick-start")vignette("extending-diseasystore")Vignette for the Google COVID-19 data is included.
vignette("diseasystore-google-covid-19")