etl_to_omop: Synthea to OMOP ETL

In meerapatelmd/polyester2: ETL Synthea into OMOP CDM

Description

Synthea to OMOP ETL

Usage

etl_to_omop(
  user = NULL,
  password = NULL,
  server = NULL,
  port = NULL,
  omop_cdm_schema = "omop_cdm",
  synthea_schema = "native_synthea",
  path_to_synthea_csvs = "synthea_output/2020-12-20 20:12:56/csv/",
  path_to_omop_vocab_csvs = ""
)

Arguments

omop_cdm_schema	Destination schema for the OMOP Vocabulary Tables and ETL'd Synthea data
synthea_schema	Schema where the native synthea csvs will be loaded for the ETL.
path_to_synthea_csvs	Path to the csvs produced by run_synthea.
path_to_omop_vocab_csvs	Path to csvs downloaded the reconstituted (if CPT4 is desired) from athena.ohdsi.org.
connDetails	Connection Details object, Default: cd

See Also

typewrite DropVocabTables,DropEventTables,DropSyntheaTables,DropMapAndRollupTables,CreateVocabTables,CreateEventTables,CreateSyntheaTables,LoadSyntheaTables,LoadVocabFromCsv,CreateVocabMapTables,CreateVisitRollupTables,LoadEventTables

meerapatelmd/polyester2 documentation built on Dec. 21, 2021, 4:54 p.m.