getCaseContinuousFeatures: Extract aggregate statistics of continuous feature analysis...

In OhdsiReportGenerator: Observational Health Data Sciences and Informatics Report Generator

Extract aggregate statistics of continuous feature analysis IDs of interest for targets

Description

This function extracts the continuous feature extraction results for cases corresponding to specified target and outcome cohorts.

Usage

getCaseContinuousFeatures(
  connectionHandler,
  schema,
  cTablePrefix = "c_",
  cgTablePrefix = "cg_",
  databaseTable = "database_meta_data",
  targetIds = NULL,
  outcomeIds = NULL,
  analysisIds = NULL
)

Arguments

connectionHandler	A connection handler that connects to the database and extracts sql queries. Create a connection handler via 'ResultModelManager::ConnectionHandler$new()'.
schema	The result database schema (e.g., 'main' for sqlite)
cTablePrefix	The prefix used for the characterization results tables
cgTablePrefix	The prefix used for the cohort generator results tables
databaseTable	The name of the table with the database details (default 'database_meta_data')
targetIds	A vector of integers corresponding to the target cohort IDs
outcomeIds	A vector of integers corresponding to the outcome cohort IDs
analysisIds	The feature extraction analysis ID of interest (e.g., 201 is condition)

Details

Specify the connectionHandler, the schema and the target/outcome cohort IDs

Value

Returns a data.frame with the columns:

• databaseName the name of the database

• targetName the target cohort name

• targetId the target cohort unique identifier

• outcomeName the outcome name

• outcomeId the outcome unique identifier

• minPriorObservation the minimum required observation days prior to index for an entry

• outcomeWashoutDays patients with the outcome occurring within this number of days prior to index are excluded (NA means no exclusion)

• covariateName the name of the feature

• covariateId the id of the feature

• countValue the number of cases who have the feature

• minValue the minimum value observed for the feature

• maxValue the maximum value observed for the feature

• averageValue the mean value observed for the feature

• standardDeviation the standard deviation of the value observed for the feature

• medianValue the median value observed for the feature

• p10Value the 10th percentile of the value observed for the feature

• p25Value the 25th percentile of the value observed for the feature

• p75Value the 75th percentile of the value observed for the feature

• p90Value the 90th percentile of the value observed for the feature

See Also

Other Characterization: getBinaryCaseSeries(), getBinaryRiskFactors(), getCaseBinaryFeatures(), getCaseCounts(), getCharacterizationDemographics(), getContinuousCaseSeries(), getContinuousRiskFactors(), getDechallengeRechallenge(), getIncidenceRates(), getTargetBinaryFeatures(), getTargetContinuousFeatures(), getTargetCounts(), getTimeToEvent(), plotAgeDistributions(), plotSexDistributions()

Examples

conDet <- getExampleConnectionDetails()

connectionHandler <- ResultModelManager::ConnectionHandler$new(conDet)

ccf <- getCaseContinuousFeatures(
connectionHandler = connectionHandler, 
schema = 'main'
)

OhdsiReportGenerator documentation built on April 12, 2025, 2:09 a.m.