Function reference

Main verbs

Use these functions, in the order below, to make your data ready for submission.

st_validate()

Validate individual level data

st_locate()

Convert region names to codes

st_aggregate()

Aggregate validated data

st_save()

Export data to Excel

Built-in data

Regions

Standard predefined regions, from country to municipality level. Both objects below contain the same data in different formats. You should mostly use regions in st_validate() and st_locate(). regions_df is only for your easy exploration of region options.

regions

Regions list

regions_df

Regions dataframe

Assays

Standard predefined assays for different pathogens. Options for in-house assays are also available. Both objects below contain the same data in different formats. You should mostly use assays in st_validate(). assays_df is only for your easy exploration of assay options.

assays

Assays list

assays_df

Assays dataframe

Sample data

sample_raw_data

Example fictitious data