externalValidatePlp: externalValidatePlp - Validate a model on new databases

In ted9219/CoDImputationHeart: Cause of death imputation package

Description

This function extracts data using a user specified connection and cdm_schema, applied the model and then calcualtes the performance

Usage

externalValidatePlp(
  plpResult,
  connectionDetails,
  validationSchemaTarget,
  validationSchemaOutcome,
  validationSchemaCdm,
  databaseNames,
  validationTableTarget = "cohort",
  validationTableOutcome = "cohort",
  validationIdTarget = NULL,
  validationIdOutcome = NULL,
  oracleTempSchema = NULL,
  verbosity = "INFO",
  keepPrediction = F,
  sampleSize = NULL,
  outputFolder
)

Arguments

plpResult	The object returned by runPlp() containing the trained model
connectionDetails	The connection details for extracting the new data
validationSchemaTarget	A string or vector of strings specifying the database containing the target cohorts
validationSchemaOutcome	A string or vector of strings specifying the database containing the outcome cohorts
validationSchemaCdm	A string or vector of strings specifying the database containing the cdm
databaseNames	A string of vector of strings specifying sharing friendly database names corresponding to validationSchemaCdm
validationTableTarget	A string or vector of strings specifying the table containing the target cohorts
validationTableOutcome	A string or vector of strings specifying the table containing the outcome cohorts
validationIdTarget	An iteger specifying the cohort id for the target cohort
validationIdOutcome	An iteger specifying the cohort id for the outcome cohort
oracleTempSchema	The temp oracle schema requires read/write
verbosity	Sets the level of the verbosity. If the log level is at or higher in priority than the logger threshold, a message will print. The levels are: DEBUGHighest verbosity showing all debug statements TRACEShowing information about start and end of steps INFOShow informative information (Default) WARNShow warning messages ERRORShow error messages FATALBe silent except for fatal errors
keepPrediction	Whether to keep the predicitons for the new data
sampleSize	If not NULL, the number of people to sample from the target cohort
outputFolder	If you want to save the results enter the directory to save here

Details

Users need to input a trained model (the output of runPlp()) and new database connections. The function will return a list of length equal to the number of cdm_schemas input with the performance on the new data

Value

A list containing the performance for each validation_schema

ted9219/CoDImputationHeart documentation built on Sept. 15, 2020, 11:30 a.m.