Comparative Cohort Method with Large Scale Propensity and Outcome Models

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Documentation for package ‘CohortMethod’ version 6.0.1

• DESCRIPTION file
• User guides, package vignettes and other documentation
• Package NEWS
• Package README

Help Pages

adjustedKm	Compute a weight-adjusted Kaplan-Meier curve
checkCmInstallation	Check is CohortMethod and its dependencies are correctly installed
CohortMethodData	Cohort Method Data
CohortMethodData-class	Cohort Method Data
cohortMethodDataSimulationProfile	A simulation profile
computeCovariateBalance	Compute covariate balance before and after PS adjustment
computeEquipoise	Compute fraction in equipoise
computeMdrr	Compute the minimum detectable relative risk
computePsAuc	Compute the area under the ROC curve
convertUntypedListToCmAnalysesSpecifications	Convert untyped list to SccsAnalysesSpecifications
createCmAnalysesSpecifications	Create full CM analysis specifications
createCmAnalysis	Create a CohortMethod analysis specification
createCmDiagnosticThresholds	Create CohortMethod diagnostics thresholds
createCmTable1	Create a table 1
createCohortMethodDataSimulationProfile	Create simulation profile
createComputeCovariateBalanceArgs	Create a parameter object for the function 'computeCovariateBalance()'
createCreatePsArgs	Create a parameter object for the function 'createPs()'
createCreateStudyPopulationArgs	Create a parameter object for the function 'createStudyPopulation()'
createDefaultMultiThreadingSettings	Create default CohortMethod multi-threading settings
createFitOutcomeModelArgs	Create a parameter object for the function 'fitOutcomeModel()'
createGetDbCohortMethodDataArgs	Create a parameter object for the function 'getDbCohortMethodData()'
createMatchOnPsArgs	Create a parameter object for the function 'matchOnPs()'
createMultiThreadingSettings	Create CohortMethod multi-threading settings
createOutcome	Create outcome definition
createPs	Create propensity scores
createResultsDataModel	Create the results data model tables on a database server.
createStratifyByPsArgs	Create a parameter object for the function 'stratifyByPs()'
createStudyPopulation	Create a study population
createTargetComparatorOutcomes	Create target-comparator-outcomes combinations.
createTrimByPsArgs	Create a parameter object for the function 'trimByPs()'
createTruncateIptwArgs	Create a parameter object for the function 'truncateIptw()'
drawAttritionDiagram	Draw the attrition diagram
exportToCsv	Export cohort method results to CSV files
fitOutcomeModel	Create an outcome model, and compute the relative risk
getAttritionTable	Get the attrition table for a population
getDataMigrator	Get database migrations instance
getDbCohortMethodData	Get the cohort data from the server
getDefaultCmTable1Specifications	Get the default table 1 specifications
getDiagnosticsSummary	Get a summary report of the analyses diagnostics
getFileReference	Get file reference
getFollowUpDistribution	Get the distribution of follow-up time
getGeneralizabilityTable	Get information on generalizability
getInteractionResultsSummary	Get a summary report of the analyses results
getOutcomeModel	Get the outcome model
getPsModel	Get the propensity model
getResultsDataModelSpecifications	Get specifications for CohortMethod results data model
getResultsSummary	Get a summary report of the analyses results
isCohortMethodData	Check whether an object is a CohortMethodData object
loadCmAnalysisList	Load a list of CmAnalysis from file
loadCohortMethodData	Load the cohort method data from a file
loadTargetComparatorOutcomesList	Load a list of 'TargetComparatorOutcomes' from file
matchOnPs	Match persons by propensity score
migrateDataModel	Migrate Data model
plotCovariateBalanceOfTopVariables	Plot variables with largest imbalance
plotCovariateBalanceScatterPlot	Create a scatterplot of the covariate balance
plotCovariatePrevalence	Plot covariate prevalence
plotFollowUpDistribution	Plot the distribution of follow-up time
plotKaplanMeier	Plot the Kaplan-Meier curve
plotPs	Plot the propensity score distribution
plotTimeToEvent	Plot time-to-event
runCmAnalyses	Run a list of analyses
saveCmAnalysisList	Save a list of CmAnalysis to file
saveCohortMethodData	Save the cohort method data to file
saveTargetComparatorOutcomesList	Save a list of 'TargetComparatorOutcomes' to file
show-method	Cohort Method Data
simulateCohortMethodData	Generate simulated data
stratifyByPs	Stratify persons by propensity score
summary-method	Cohort Method Data
trimByPs	Trim persons by propensity score
truncateIptw	Truncate IPTW values
uploadResults	Upload results to the database server.