Execute the validation study — execute • SkeletonPredictionValidationStudy

Execute the validation study

execute(
  connectionDetails,
  databaseName,
  cdmDatabaseSchema,
  cohortDatabaseSchema,
  oracleTempSchema,
  cohortTable,
  outputFolder,
  createCohorts = T,
  runValidation = T,
  packageResults = T,
  minCellCount = 5,
  sampleSize = NULL,
  keepPrediction = T,
  verbosity = "INFO"
)

Arguments

connectionDetails	An object of type `connectionDetails` as created using the `createConnectionDetails` function in the DatabaseConnector package.
databaseName	A string representing a shareable name of your databasd
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'.
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'.
oracleTempSchema	Should be used in Oracle to specify a schema where the user has write priviliges for storing temporary tables.
cohortTable	The name of the table that will be created in the work database schema. This table will hold the exposure and outcome cohorts used in this study.
outputFolder	Name of local folder to place results; make sure to use forward slashes (/)
createCohorts	Whether to create the cohorts for the study
runValidation	Whether to run the valdiation models
packageResults	Whether to package the results (after removing sensitive details)
minCellCount	The min count for the result to be included in the package results
sampleSize	Whether to sample from the target cohort - if desired add the number to sample
keepPrediction	Whether to save the individual predictions
verbosity	Log verbosity

Details

This function will execute the sepcified parts of the study