Function reference • DrugUtilisation

Generate a drug utilisation cohort set

Generate a cohort of drug use

generateAtcCohortSet(): Generates a cohort of the drug use of ATC name(s) of interest.

generateDrugUtilisationCohortSet(): Generates a cohort of the drug use of a certain list of concepts.

generateIngredientCohortSet(): Generates a cohort of the drug use of ingredient name(s) of interest.

Indication functions

Indication functions are used to summarise and obtain the indication information

addIndication(): Get indication for a target cohort

indicationToStrata(): Create new variables summarising the data of indication that can be used as stratification columns

summariseIndication(): This function is used to summarise the indication table over multiple cohorts.

Add daily dose

Tools to compute the daily dose, see when it can be computed

addDailyDose(): add daily dose information to a drug_exposure table

addRoute(): add route column to a table containing drug_exposure information

dailyDoseCoverage(): Check coverage of daily dose computation in a sample of the cdm for selected concept sets and ingredient

patternTable(): Function to create a tibble with the patterns from current drug strength table

patternsWithFormula: Patterns valid to compute daily dose with the associated formula.

stratifyByUnit(): Function to stratify a conceptSet by unit

Drug use functions

Drug use functions are used to summarise and obtain the drug use information

addDrugUse(): Add new columns with drug use related information

summariseDrugUse(): This function is used to summarise the dose table over multiple cohorts.

Summarise treatments during certain windows

Summarise the use of different treatments during certain windows

summariseTreatmentFromCohort(): This function is used to summarise the dose table over multiple cohorts.

summariseTreatmentFromConceptSet(): This function is used to summarise the dose table over multiple cohorts.

Charcterise a cohort

Different functions to characterize cohort, these functions may be moved to more focused into characterization packages within DARWIN-EU framework

Complementary functions

Helpper functions, some of thay may be deprecated in the near future

mockDrugUtilisation(): It creates a mock database for testing drugutilisation package

readConceptList(): Get concept ids from a provided path to json files

Benchmarking function

Function to test performance of different functions in DrugUtilisation

benchmarkDUS(): Run benchmark of drug utilisation cohort generation