Reference

Aggregate Covariate Analysis

This analysis calculates the aggregate characteristics for a Target cohort (T), an Outcome cohort (O) and combiations of T with O during time at risk and T without O during time at risk.

createAggregateCovariateSettings()

Create aggregate covariate study settings

computeAggregateCovariateAnalyses()

Compute aggregate covariate study

Dechallenge Rechallenge Analysis

For a given Target cohort (T) and Outcome cohort (O) find any occurrances of a dechallenge (when the T cohort stops close to when O started) and a rechallenge (when T restarts and O starts again) This is useful for investigating causality between drugs and events.

createDechallengeRechallengeSettings()

Create dechallenge rechallenge study settings

computeDechallengeRechallengeAnalyses()

Compute dechallenge rechallenge study

computeRechallengeFailCaseSeriesAnalyses()

Compute fine the subjects that fail the dechallenge rechallenge study

Time to Event Analysis

This analysis calculates the timing between the Target cohort (T) and an Outcome cohort (O).

createTimeToEventSettings()

Create time to event study settings

computeTimeToEventAnalyses()

Compute time to event study

Run Large Scale Characterization Study

Run multipe aggregate covariate analysis, time to event and dechallenge/rechallenge studies.

createCharacterizationSettings()

Create the settings for a large scale characterization study

runCharacterizationAnalyses()

execute a large-scale characterization study

saveCharacterizationSettings()

Save the characterization settings as a json

loadCharacterizationSettings()

Load the characterization settings previously saved as a json file

Save Load

Functions to save the analysis settings and the results (as sqlite or csv files).

saveTimeToEventAnalyses()

Save the TimeToEvent results

exportTimeToEventToCsv()

export the TimeToEvent results as csv

loadTimeToEventAnalyses()

Load the TimeToEvent results

saveDechallengeRechallengeAnalyses()

Save the DechallengeRechallenge results

saveRechallengeFailCaseSeriesAnalyses()

Save the RechallengeFailCaseSeries results

loadDechallengeRechallengeAnalyses()

Load the DechallengeRechallenge results

loadRechallengeFailCaseSeriesAnalyses()

Load the RechallengeFailCaseSeries results

exportDechallengeRechallengeToCsv()

export the DechallengeRechallenge results as csv

exportRechallengeFailCaseSeriesToCsv()

export the RechallengeFailCaseSeries results as csv

saveAggregateCovariateAnalyses()

Save the AggregateCovariate results

loadAggregateCovariateAnalyses()

Load the AggregateCovariate results

exportAggregateCovariateToCsv()

export the AggregateCovariate results as csv

Insert into Database

Functions to insert the results into a database.

createSqliteDatabase()

Create an sqlite database connection

createCharacterizationTables()

Create the results tables to store characterization results into a database

exportDatabaseToCsv()

Exports all tables in the result database to csv files

Shiny App

Functions to interactively exlore the results from runCharacterizationAnalyses().

viewCharacterization()

viewCharacterization - Interactively view the characterization results