API for marioni-group/MethylPipeR
MethylPipeR
| Global functions | |
|---|---|
| assignTrainingFolds | Man page Source code |
| beginPipelineRun | Man page Source code |
| calculateMetricsAtThreshold | Source code |
| calculateMetricsBinaryClassifier | Man page Source code |
| checkBARTAvailable | Source code |
| checkMatrixOrDF | Man page Source code |
| checkMethod | Man page Source code |
| checkMethodPackageInstalled | Man page Source code |
| checkNA | Man page Source code |
| checkType | Man page Source code |
| createClassWeights | Man page Source code |
| createTTEDensityPlot | Source code |
| cvBARTNYearOnset | Source code |
| endPipelineRun | Man page Source code |
| fitBARTSurvival | Man page Source code |
| fitCoxModel | Man page Source code |
| fitCoxPH | Man page Source code |
| fitLogisticModel | Man page Source code |
| fitMPRModel | Man page Source code |
| fitMPRModelBinaryBART | Source code |
| fitMPRModelBinaryRF | Source code |
| fitMPRModelBinarybiglasso | Source code |
| fitMPRModelBinaryglmnet | Source code |
| fitMPRModelCV | Man page Source code |
| fitMPRModelContinuousBART | Source code |
| fitMPRModelContinuousRF | Source code |
| fitMPRModelContinuousbiglasso | Source code |
| fitMPRModelContinuousglmnet | Source code |
| fitMPRModelIncremental | Man page Source code |
| fitMPRModelSurvivalBART | Source code |
| fitMPRModelSurvivalRF | Source code |
| fitMPRModelSurvivalbiglasso | Source code |
| fitMPRModelSurvivalglmnet | Source code |
| formatPlot | Source code |
| get450kIDs | Source code |
| getBalancedCVFoldIDs | Man page Source code |
| getFilterByCoefOfVarIDs | Source code |
| getGroupCVFoldIDs | Man page Source code |
| getNonZeroCoefficients | Man page Source code |
| imputeMean | Source code |
| incrementalTest | Man page Source code |
| initLogs | Man page Source code |
| initSessionLogFile | Source code |
| loadData | Man page Source code |
| logSessionLines | Man page Source code |
| mToBeta | Source code |
| multipleROC | Man page Source code |
| plotMPRIncrementalModelConfusionMatrix | Man page Source code |
| plotMPRIncrementalModelROC | Man page Source code |
| plotSingleVariableDensity | Man page Source code |
| plotVariableByGroupDensity | Man page Source code |
| predictCoxModel | Man page Source code |
| predictLogisticModel | Man page Source code |
| predictMPRModel | Man page Source code |
| predictMPRModelBinaryBART | Source code |
| predictMPRModelBinaryRF | Source code |
| predictMPRModelContinuousBART | Source code |
| predictMPRModelContinuousRF | Source code |
| predictMPRModelbiglasso | Source code |
| predictMPRModelglmnet | Source code |
| removeByThreshold | Source code |
| removeDeathsFromControls | Man page Source code |
| rfCV | Man page Source code |
| rfCVGridSearch | Source code |
| rfCVIter | Source code |
| rfCVIteration | Source code |
| rfTrainAndTest | Source code |
| saveMPRModelObject | Man page Source code |
| thresholdTTE | Man page Source code |
| trainAndTestRF | Man page Source code |
