get_concept: OMOP Get Concept

In ReviewR: A Light-Weight, Portable Tool for Reviewing Individual Patient Records

OMOP Get Concept

Description

This function assists with transforming OMOP concept_ids to interpretable strings by retrieving the requested concepts from the appropriate OMOP concept table.

Usage

get_concept(
  table_map,
  db_connection,
  concept_table,
  concept_id,
  concept_name,
  table,
  joinable_id,
  table_concept_id,
  col_name,
  subject_id_field = NULL,
  selected_subject = NULL
)

Arguments

table_map	A dplyr::tibble containing a mapping between the CDM standard tables and fields to the user connected tables and fields.
db_connection	A DBI::dbConnect object.
concept_table	A string, containing the standard CDM concept table name.
concept_id	A string, containing the standard CDM concept id field.
concept_name	A string, containing the standard CDM concept name field.
table	A string, containing the table name that requires OMOP concepts.
joinable_id	A string, indicating what variable is "joinable" between the concept table and the desired table.
table_concept_id	A string, containing the the table concept id
col_name	A string, containing the desired name for the retrieved concept.
subject_id_field	A string, identifying which table field contains the subject id.
selected_subject	A numeric, or coercible to numeric containing the desired subject id.

Value

The desired OMOP concept based on the user data model for all subjects

ReviewR documentation built on Sept. 1, 2023, 5:08 p.m.