Function reference • ukbwranglr

Loading UK Biobank data

Make a data dictionary and optionally select columns to read into R +/- labels.

make_data_dict(): Generate a UK Biobank data dictionary

read_ukb(): Read a UK Biobank main dataset file

Tidy clinical events data

Convert clinical events data from multiple sources to a standardised long format table

tidy_clinical_events(): Tidy clinical events data from a UK Biobank main dataset

make_clinical_events_db(): Create a SQLite database with a clinical_events table

clinical_events_sources(): Details for UK Biobank clinical events data

Extract phenotypes

Identify individuals with certain phenotypes based on clinical codes

extract_phenotypes(): Extract phenotypes from clinical events data

example_clinical_codes(): Generate an example data frame of clinical codes for diabetes

validate_clinical_codes(): Validate a clinical codes data frame

mutate_age_at_event_cols(): Mutate age at event columns

Summarise numerical variables

Summarise all or a selection of continuous variables

summarise_numerical_variables(): Summarise numerical variables

Derived variables

Commonly required derived variables

derive_dob(): Derive an estimated participant date of birth

derive_ethnic_background_simplified(): Derive simplified ethnic background

Utilites

Miscellaneous general utility functions

get_ukb_data_dict(): Get the UK Biobank data dictionary

get_ukb_codings(): Get the UK Biobank codings file

db_tables_to_list(): Make a named list of tbl_dbi objects from a DBIConnection object

Dummy data

Dummy UKB datasets, data dictionary and data codings

get_ukb_dummy(): Dummy UK Biobank data