OHDSI/PatientLevelPrediction
Developing patient level prediction using data in the OMOP Common Data Model

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Functions
450
Source code
102
Man pages
131
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OHDSI/PatientLevelPrediction: Developing patient level prediction using data in the OMOP Common Data Model
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API

API for OHDSI/PatientLevelPrediction
Developing patient level prediction using data in the OMOP Common Data Model

Global functions
AdaBoostClassifierInputs Source code
DecisionTreeClassifierInputs Source code
GaussianNBInputs Source code
MLPClassifierInputs Source code
MapIds Man page Source code
PatientLevelPrediction Man page
PatientLevelPrediction-package Man page
RandomForestClassifierInputs Source code
SVCInputs Source code
accuracy Man page Source code
addAttrition Source code
addCalibrationSummary Source code
addCohort Source code
addCovariateSetting Source code
addCovariateSummary Source code
addDatabase Source code
addDemographicSummary Source code
addDiagnosePlpToDatabase Man page Source code
addDiagnostic Source code
addEvaluation Source code
addEvaluationStatistics Source code
addFESetting Source code
addModel Source code
addModelDesign Source code
addModelSetting Source code
addMultipleDiagnosePlpToDatabase Man page Source code
addMultipleRunPlpToDatabase Man page Source code
addPerformance Source code
addPlpDataSetting Source code
addPopulationSetting Source code
addPredictionDistribution Source code
addResultTable Source code
addRunPlpToDatabase Man page Source code
addSampleSetting Source code
addSplitSettings Source code
addTar Source code
addThresholdSummary Source code
addTidySetting Source code
aggregateCovariateSummaries Source code
applyCrossValidationInR Source code
applyFeatureengineering Source code
applyMinCellCount Source code
applyTidyCovariateData Source code
aucWithCi Source code
aucWithoutCi Source code
averagePrecision Man page Source code
batchRestrict Source code
brierScore Man page Source code
calculateEStatisticsBinary Source code
calculatePrevs Source code
calculateStratifiedMeans Source code
calibrationInLarge Source code
calibrationInLargeIntercept Source code
calibrationLine Man page Source code
calibrationWeak Source code
checkBoolean Source code
checkFileExists Source code
checkHigher Source code
checkHigherEqual Source code
checkInStringVector Source code
checkInputs Source code
checkInputsSplit Source code
checkIsClass Source code
checkJson Source code
checkLower Source code
checkLowerEqual Source code
checkNotNull Source code
checkPySettings Source code
checkRam Source code
checkResultExists Source code
checkTable Source code
checkToByTwoTableInputs Source code
cleanNum Source code
closeLog Source code
computeAuc Man page Source code
computeGridPerformance Man page Source code
configurePython Man page Source code
convertToJson Source code
cos_sim Source code
covariateSummary Man page Source code
covariateSummarySubset Source code
createCohortCovariateSettings Man page Source code
createCovariateSubsets Source code
createCyclopsModel Source code
createDatabaseDetails Man page Source code
createDatabaseList Man page Source code
createDatabaseSchemaSettings Man page Source code
createDefaultExecuteSettings Man page Source code
createDefaultSplitSetting Man page Source code
createExecuteSettings Man page Source code
createFeatureEngineeringSettings Man page Source code
createLearningCurve Man page Source code
createLog Source code
createLogSettings Man page Source code
createModelDesign Man page Source code
createPlpResultTables Man page Source code
createPreprocessSettings Man page Source code
createRandomForestFeatureSelection Man page Source code
createRestrictPlpDataSettings Man page Source code
createSampleSettings Man page Source code
createSplineSettings Man page Source code
createStratifiedImputationSettings Man page Source code
createStudyPopulation Man page Source code
createStudyPopulationSettings Man page Source code
createTempModelLoc Man page Source code
createUnivariateFeatureSelection Man page Source code
createValidationDesign Man page Source code
createValidationSettings Man page Source code
cut2 Source code
dataSummary Source code
deSerializeAdaboost Source code
deSerializeCsrMatrix Source code
deSerializeDecisionTree Source code
deSerializeMlp Source code
deSerializeNaiveBayes Source code
deSerializeRandomForest Source code
deSerializeSVM Source code
deSerializeTree Source code
deleteTables Source code
diagnoseMultiplePlp Man page Source code
diagnosePlp Man page Source code
diagnosticOddsRatio Man page Source code
enc Source code
ensure_installed Source code
evaluatePlp Man page Source code
externalValidateDbPlp Man page Source code
externalValidatePlp Source code
extractCohortDefinitionsCSV Source code
extractDatabaseListCSV Source code
extractDatabaseToCsv Man page Source code
extractDiagnosticFromCsv Source code
extractObjectFromCsv Source code
f1Score Man page Source code
falseDiscoveryRate Man page Source code
falseNegativeRate Man page Source code
falseOmissionRate Man page Source code
falsePositiveRate Man page Source code
featureEngineer Source code
filterCovariateIds Source code
fitCyclopsModel Source code
fitKNN Source code
fitLightGBM Source code
fitPlp Man page Source code
fitPythonModel Source code
fitRclassifier Source code
fitSklearn Source code
fitXgboost Source code
getCV Source code
getCalibrationSummary Man page Source code
getCalibrationSummary_binary Source code
getCalibrationSummary_survival Source code
getCohortCovariateData Man page Source code
getCohortDef Source code
getColumnNames Source code
getCounts Source code
getCounts2 Source code
getCovariatesForGroup Source code
getDataMigrator Source code
getDemographicSummary Man page Source code
getDemographicSummary_binary Source code
getDemographicSummary_survival Source code
getDiagnostic Source code
getEvaluationStatistics Source code
getEvaluationStatistics_binary Source code
getEvaluationStatistics_survival Source code
getMaxEndDaysFromCovariates Source code
getModelDesignCsv Source code
getModelDesignSettingTable Source code
getOs Source code
getOutcomeSummary Source code
getPerformanceEvaluationCsv Source code
getPlpData Man page Source code
getPlpResultTables Source code
getPlpSensitiveColumns Source code
getPredictionDistribution Man page Source code
getPredictionDistribution_binary Man page Source code
getPredictionDistribution_survival Source code
getResultLocations Source code
getTableNamesPlp Source code
getThresholdSummary Man page Source code
getThresholdSummary_binary Man page Source code
getThresholdSummary_survival Source code
getTrainFractions Source code
getVariableImportance Source code
gridCvPython Source code
ici Man page Source code
imputeMissingMeans Source code
insertCsvToDatabase Man page Source code
insertDiagnosisToDatabase Source code
insertModelDesignInDatabase Man page Source code
insertModelDesignSettings Source code
insertModelInDatabase Source code
insertPerformanceInDatabase Source code
insertResultsToSqlite Man page Source code
insertRunPlpToSqlite Source code
inverseLog Source code
lcWrapper Source code
learningCurveHelper Source code
limitCovariatesToPopulation Source code
listAppend Man page Source code
listCartesian Man page Source code
loadPlpAnalysesJson Man page Source code
loadPlpData Man page Source code
loadPlpModel Man page Source code
loadPlpResult Man page Source code
loadPlpShareable Man page Source code
loadPrediction Man page Source code
logFunct Source code
migrateDataModel Man page Source code
modelBasedConcordance Man page Source code
modelTypeToCyclopsModelType Source code
negativeLikelihoodRatio Man page Source code
negativePredictiveValue Man page Source code
nrow Source code
nrow.tbl Source code
orderJson Source code
outcomeSurvivalPlot Man page Source code
overSampleData Source code
permute Source code
permutePerf Source code
pfi Man page Source code
plotDemographicSummary Man page Source code
plotF1Measure Man page Source code
plotGeneralizability Man page Source code
plotLearningCurve Man page Source code
plotPlp Man page Source code
plotPrecisionRecall Man page Source code
plotPredictedPDF Man page Source code
plotPredictionDistribution Man page Source code
plotPreferencePDF Man page Source code
plotSmoothCalibration Man page Source code
plotSmoothCalibrationLoess Source code
plotSmoothCalibrationRcs Source code
plotSparseCalibration Man page Source code
plotSparseCalibration2 Man page Source code
plotSparseRoc Man page Source code
plotVariableScatterplot Man page Source code
plpDataSimulationProfile Man page
positiveLikelihoodRatio Man page Source code
positivePredictiveValue Man page Source code
predictCyclops Man page Source code
predictCyclopsType Source code
predictKnn Source code
predictLightGBM Source code
predictPlp Man page Source code
predictPythonSklearn Source code
predictValues Source code
predictXgboost Source code
preprocessData Man page
print.plpData Source code
print.summary.plpData Source code
printHeader Source code
probastDesign Source code
probastOutcome Source code
probastParticipants Source code
probastPredictors Source code
randomForestFeatureSelection Source code
randomSplitter Source code
recalibratePlp Man page Source code
recalibratePlpRefit Man page Source code
recalibrationInTheLarge Source code
removeCellCount Source code
removeInvalidString Source code
removeList Source code
reparamTransferCoefs Source code
runMultiplePlp Man page Source code
runPlp Man page Source code
sameData Source code
sampleData Source code
saveModelPart Source code
savePlpAnalysesJson Man page Source code
savePlpData Man page Source code
savePlpModel Man page Source code
savePlpResult Man page Source code
savePlpShareable Man page Source code
savePrediction Man page Source code
sensitivity Man page Source code
serializeAdaboost Source code
serializeCsrMatrix Source code
serializeDecisionTree Source code
serializeMLP Source code
serializeNaiveBayes Source code
serializeRandomForest Source code
serializeSVM Source code
serializeTree Source code
setAdaBoost Man page Source code
setCoxModel Man page Source code
setDecisionTree Man page Source code
setGradientBoostingMachine Man page Source code
setIterativeHardThresholding Man page Source code
setKNN Man page Source code
setLassoLogisticRegression Man page Source code
setLightGBM Man page Source code
setMLP Man page Source code
setNaiveBayes Man page Source code
setPythonEnvironment Man page Source code
setRandomForest Man page Source code
setSVM Man page Source code
simulatePlpData Man page Source code
sklearnFromJson Man page Source code
sklearnToJson Man page Source code
specificity Man page Source code
splineCovariates Source code
splineMap Source code
splitData Man page Source code
stratifiedImputeCovariates Source code
subjectSplitter Source code
summary.plpData Source code
timeSplitter Source code
toSparseM Man page Source code
underSampleData Source code
univariateFeatureSelection Source code
validateExternal Man page Source code
validateModel Source code
validateMultiplePlp Man page Source code
varImpLightGBM Source code
varImpXgboost Source code
viewDatabaseResultPlp Man page Source code
viewMultiplePlp Man page Source code
viewPlp Man page Source code
viewPlps Source code
weakRecalibration Source code
OHDSI/PatientLevelPrediction documentation built on Sept. 15, 2024, 6:38 a.m.

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