codesFromCohort: Get concept ids from JSON files containing cohort definitions

In CodelistGenerator: Identify Relevant Clinical Codes and Evaluate Their Use

Get concept ids from JSON files containing cohort definitions

Description

Get concept ids from JSON files containing cohort definitions

Usage

codesFromCohort(path, cdm, type = c("codelist"))

Arguments

path	Path to a file or folder containing JSONs of cohort definitions.
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).
type	Can be "codelist", "codelist_with_details" or "concept_set_expression".

Value

Named list with concept_ids for each concept set.

Examples

library(CodelistGenerator)
cdm <- mockVocabRef("database")
x <- codesFromCohort(cdm = cdm,
                     path =  system.file(package = "CodelistGenerator",
                     "cohorts_for_mock"))
x
CDMConnector::cdmDisconnect(cdm)

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