ReviewR: get_concept – R documentation

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get_concept

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

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

v2.3.6

BSD_3_clause + file LICENSE

Authors

Laura Wiley [aut] (<https://orcid.org/0000-0001-6681-9754>), Luke Rasmussen [aut] (<https://orcid.org/0000-0002-4497-8049>), David Mayer [cre, aut], The Wiley Lab [cph, fnd]

Initial release