getConceptSetDetails: Fill in Concept Set details using a vocab
| getConceptSetDetails | R Documentation |
Fill in Concept Set details using a vocab
Description
Concept sets created in R using the 'cs' function do not contain details like "CONCEPT_NAME", "DOMAIN_ID", etc. If an OMOP CDM vocabulary is available then these details can be filled in by the the 'getConceptSetDetails' function.
Usage
getConceptSetDetails(x, con, vocabularyDatabaseSchema = NULL)
Arguments
x |
A concept set created by 'cs' |
con |
A connection to an OMOP CDM database |
vocabularyDatabaseSchema |
Schema name where your OMOP vocabulary format resides. Note that for SQL Server, this should include both the database and schema name, for example 'vocabulary.dbo'. |
Value
A modified version of the input concept set with concept details filled in.
Examples
## Not run:
# create a concept set
vocabularyDatabaseSchema = "cdm5"
anemia <- cs(descendants(439777,4013073,4013074), name = "anemia")
# fill in the details from an OMOP CDM
library(DatabaseConnector)
con <- connect(dbms = "postgresql", user = "postgres", password = "", server = "localhost/cdm")
anemia <- getConceptSetDetails(condition_anemia, con, vocabularyDatabaseSchema = "cdm5")
## End(Not run)
