CodelistGenerator (version 4.1.0)

associatedVocabularies: Get the vocabularies associated with a codelist

Description

Get the vocabularies associated with a codelist

Usage

associatedVocabularies(x, cdm, standardConcept = "Standard", domain = NULL)

Value

Names of available vocabularies.

Arguments

x

A codelist, codelist_with_details, or a concept_set. See newCodelist(), newCodelistWithDetails(), newConceptSetExpression() functions for more details.

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).

standardConcept

Character vector with one or more of "Standard", "Classification", and "Non-standard". These correspond to the flags used for the standard_concept field in the concept table of the cdm.

domain

Character vector with one or more of the OMOP CDM domains. The results will be restricted to the given domains. Check the available domains in the database by running 'availableDomains()', or 'associatedDomains()' to explore the domains associated with a codelist. If NULL, all supported domains are included: Condition, Drug, Procedure, Device, Observation, and Measurement.

Examples

# \donttest{
library(CodelistGenerator)
library(omock)

# Create CDM object
cdm <- mockCdmReference()

# Get all vocabularies from a codelist
codelist <- newCodelist(list("codes1" = c(35604877L, 35604394L),
                             "codes2" = c(4214687L)))
associatedVocabularies(cdm = cdm,
                      x = codelist)
# }