createOutcomeCohorts: Create the outcome cohorts

In ohdsi-studies/LegendT2dm: Large-Scale Evidence Generation and Evaluation in a Network of Databases

Create the outcome cohorts

Description

Create the outcome cohorts

Usage

createOutcomeCohorts(
  connectionDetails,
  cdmDatabaseSchema,
  vocabularyDatabaseSchema = cdmDatabaseSchema,
  cohortDatabaseSchema,
  tablePrefix = "legendt2dm",
  oracleTempSchema,
  outputFolder,
  databaseId,
  filterOutcomeCohorts = NULL
)

Arguments

connectionDetails	An object of type connectionDetails as created using the createConnectionDetails function in the DatabaseConnector package.
cdmDatabaseSchema	Schema name where your patient-level data in OMOP CDM format resides. Note that for SQL Server, this should include both the database and schema name, for example 'cdm_data.dbo'.
vocabularyDatabaseSchema	Schema name where your vocabulary tables in OMOP CDM format resides. Note that for SQL Server, this should include both the database and schema name, for example 'cdm_data.dbo'.
cohortDatabaseSchema	Schema name where intermediate data can be stored. You will need to have write priviliges in this schema. Note that for SQL Server, this should include both the database and schema name, for example 'cdm_data.dbo'.
tablePrefix	A prefix to be used for all table names created for this study.
oracleTempSchema	Should be used in Oracle to specify a schema where the user has write priviliges for storing temporary tables.
outputFolder	Name of local folder to place results; make sure to use forward slashes (/)
databaseId	A short string for identifying the database (e.g. 'Synpuf').
filterOutcomeCohorts	Optional subset of exposure cohorts to use; NULL implies all.

Details

This function will create the outcome cohorts following the definitions included in this package.

ohdsi-studies/LegendT2dm documentation built on July 4, 2025, 8:25 p.m.