Drug Source Concepts

Run checks

library(DrugExposureDiagnostics)
library(dplyr)
library(DT)

# acetaminophen concept id is 1125315
acetaminophen <- 1125315
cdm <- mockDrugExposure()
acetaminophen_checks <- executeChecks(cdm = cdm, 
                                      ingredients = acetaminophen, 
                                      checks = "sourceConcept")

Drug Source by Concept

This shows the drug source concepts next to the mapped drug concepts. This check only exists “byConcept” to depict the required detail. Do not get confused by the name of the object being “Overall”.

datatable(acetaminophen_checks$drugSourceConceptsOverall,
  rownames = FALSE
)

Column	Description
ingredient_concept_id	Concept ID of ingredient.
ingredient	Name of drug ingredient.
drug_concept_id	ID of the drug concept.
drug	Name of the drug concept.
drug_source_concept_id	Concept ID of source concept
drug_source_type	Concept name for source concept
drug_source_value	Concept code of source concept in the original vocabulary
n_records	Number of records for drug concept. If n_records is the same as n_sample this means that there are more records but the number was cut at the pre-specified sample number for efficiency reasons.
n_sample	The pre-specified maximum sample. If n_records is smaller than the sample it means that sampling was ignored because the total number of records was already too small.
n_person	Number of individuals.
result_obscured	TRUE if count has been suppressed due to being below the minimum cell count, otherwise FALSE.