evaluateMultiplePlp: externally validate the multiple plp models across new...

In hxia/plp-git-demo: Package for patient level prediction using data in the OMOP Common Data Model

Description

This function loads all the models in a multiple plp analysis folder and validates the models on new data

Usage

evaluateMultiplePlp(
  analysesLocation,
  outputLocation,
  connectionDetails,
  validationSchemaTarget,
  validationSchemaOutcome,
  validationSchemaCdm,
  databaseNames,
  validationTableTarget,
  validationTableOutcome,
  validationIdTarget = NULL,
  validationIdOutcome = NULL,
  oracleTempSchema = NULL,
  verbosity = "INFO",
  keepPrediction = F,
  sampleSize = NULL
)

Arguments

analysesLocation	The location where the multiple plp analyses are
outputLocation	The location to save to validation results
connectionDetails	The connection details for extracting the new data
validationSchemaTarget	A string or list of strings specifying the database containing the target cohorts
validationSchemaOutcome	A string or list of strings specifying the database containing the outcome cohorts
validationSchemaCdm	A string or list of strings specifying the database containing the cdm
databaseNames	A string of lift of strings specifying sharing friendly database names corresponding to validationSchemaCdm
validationTableTarget	A string or list of strings specifying the table containing the target cohorts
validationTableOutcome	A string or list of strings specifying the table containing the outcome cohorts
validationIdTarget	An iteger or list of integers specifying the cohort id for the target cohorts
validationIdOutcome	An iteger or list of integers specifying the cohort id for the outcome cohorts
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

Details

Users need to input a location where the results of the multiple plp analyses are found and the connection and database settings for the new data

hxia/plp-git-demo documentation built on March 19, 2021, 1:54 a.m.