getMappings: Show mappings from non-standard vocabularies to standard.
In CodelistGenerator: Identify Relevant Clinical Codes and Evaluate Their Use

getMappings

R Documentation

Show mappings from non-standard vocabularies to standard.

Description

Show mappings from non-standard vocabularies to standard.

Usage

getMappings(
  candidateCodelist,
  cdm = NULL,
  nonStandardVocabularies = c("ATC", "ICD10CM", "ICD10PCS", "ICD9CM", "ICD9Proc",
    "LOINC", "OPCS4", "Read", "RxNorm", "RxNorm Extension", "SNOMED")
)

Arguments

`candidateCodelist`	Dataframe.
`cdm`	A cdm reference to an OMOP CDM dataset. If data is held within a database, the vocabulary tables should be in the same schema as the clinical tables (person, observation period, and so on).
`nonStandardVocabularies`	Character vector.

Value

Tibble with the information of potential standard to non-standard mappings for the codelist of interest.

Examples


cdm <- CodelistGenerator::mockVocabRef()
codes <- CodelistGenerator::getCandidateCodes(
  cdm = cdm,
  keywords = "osteoarthritis"
)
CodelistGenerator::getMappings(
  cdm = cdm,
  candidateCodelist = codes,
  nonStandardVocabularies = "READ"
)

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