compareCodelists: Compare overlap between two sets of codes

In CodelistGenerator: Identify Relevant Clinical Codes and Evaluate Their Use

Compare overlap between two sets of codes

Description

Compare overlap between two sets of codes

Usage

compareCodelists(codelist1, codelist2)

Arguments

codelist1	Output of getCandidateCodes or a codelist
codelist2	Output of getCandidateCodes.

Value

Tibble with information on the overlap of codes in both codelists.

Examples

library(CodelistGenerator)
library(omock)

# Create a CDM object
downloadMockDataset(datasetName = "GiBleed",
                    path = NULL,
                    overwrite = NULL)
cdm <- mockCdmFromDataset(datasetName = "GiBleed")

# Compare two candidate_codes object
codes1 <- getCandidateCodes(
  cdm = cdm,
  keywords = "Arthritis",
  domains = "Condition",
  includeDescendants = TRUE)

codes2 <- getCandidateCodes(
  cdm = cdm,
  keywords = c("osteo"),
  domains = "Condition",
  includeDescendants = TRUE)

compareCodelists(
  codelist1 = codes1,
  codelist2 = codes2)

# Compare two codelists
acetaminophen <- getDrugIngredientCodes(cdm,
                                        name = "acetaminophen",
                                        nameStyle = "{concept_name}",
                                        type = "codelist")

hydrocodone <- getDrugIngredientCodes(cdm,
                                      name = "hydrocodone",
                                      nameStyle = "{concept_name}",
                                      type = "codelist")
compareCodelists(
  codelist1 = acetaminophen,
  codelist2 = hydrocodone)
# Notice that concept_name = NA as `codelist` class does not store this information
# for each concept.

# Compare two codelists_with_details
acetaminophen <- getDrugIngredientCodes(cdm,
                                        name = "acetaminophen",
                                        nameStyle = "{concept_name}",
                                        type = "codelist_with_details")

hydrocodone <- getDrugIngredientCodes(cdm,
                                      name = "hydrocodone",
                                      nameStyle = "{concept_name}",
                                      type = "codelist_with_details")
compareCodelists(
  codelist1 = acetaminophen,
  codelist2 = hydrocodone)

CodelistGenerator documentation built on Dec. 17, 2025, 5:06 p.m.