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| actualClasses | Container for Storing Classification Results |
| actualClasses-method | Container for Storing Classification Results |
| bartlettSelection | Selection of Differential Variability with Bartlett Statistic |
| bartlettSelection-method | Selection of Differential Variability with Bartlett Statistic |
| calcPerformance | Add Performance Calculations to a ClassifyResult object |
| calcPerformance-method | Add Performance Calculations to a ClassifyResult object |
| classifyInterface | Interface for PoiClaClu Package's Classify Function |
| ClassifyResult | Container for Storing Classification Results |
| ClassifyResult-class | Container for Storing Classification Results |
| ClassifyResult-method | Container for Storing Classification Results |
| distribution | Get Frequencies of Feature Selection and Sample Errors |
| distribution-method | Get Frequencies of Feature Selection and Sample Errors |
| DMDselection | Selection of Differential Distributions with Differences in Means or Medians and a Deviation Measure |
| DMDselection-method | Selection of Differential Distributions with Differences in Means or Medians and a Deviation Measure |
| edgeRselection | Feature Selection Based on Differential Expression for RNA-seq |
| edgeRselection-method | Feature Selection Based on Differential Expression for RNA-seq |
| features | Container for Storing Classification Results |
| features-method | Container for Storing Classification Results |
| fisherDiscriminant | Classification Using Fisher's LDA |
| fisherDiscriminant-method | Classification Using Fisher's LDA |
| functionOrList | Union of Functions and List of Functions |
| functionOrList-class | Union of Functions and List of Functions |
| getLocationsAndScales | Calculate Location and Scale |
| getLocationsAndScales-method | Calculate Location and Scale |
| KolmogorovSmirnovSelection | Selection of Differential Distributions with Kolmogorov-Smirnov Distance |
| KolmogorovSmirnovSelection-method | Selection of Differential Distributions with Kolmogorov-Smirnov Distance |
| KullbackLeiblerSelection | Selection of Differential Distributions with Kullback Leibler Distance |
| KullbackLeiblerSelection-method | Selection of Differential Distributions with Kullback Leibler Distance |
| leveneSelection | Selection of Differential Variability with Levene Statistic |
| leveneSelection-method | Selection of Differential Variability with Levene Statistic |
| likelihoodRatioSelection | Selection of Differential Distributions with Likelihood Ratio Statistic |
| likelihoodRatioSelection-method | Selection of Differential Distributions with Likelihood Ratio Statistic |
| limmaSelection | Selection of Differentially Expressed Features |
| limmaSelection-method | Selection of Differentially Expressed Features |
| medianDifferenceSelection | Selection of Differential Expression by Comparing Differences in Medians of Groups |
| medianDifferenceSelection-method | Selection of Differential Expression by Comparing Differences in Medians of Groups |
| mixmodels | Selection of Differential Distributions with Mixtures of Normals |
| mixModelsTest | Selection of Differential Distributions with Mixtures of Normals |
| mixModelsTest-method | Selection of Differential Distributions with Mixtures of Normals |
| mixModelsTrain | Selection of Differential Distributions with Mixtures of Normals |
| mixModelsTrain-method | Selection of Differential Distributions with Mixtures of Normals |
| naiveBayesKernel | Classification Using A Bayes Classifier with Kernel Density Estimates |
| naiveBayesKernel-method | Classification Using A Bayes Classifier with Kernel Density Estimates |
| nearestShrunkenCentroidPredictInterface | Interface for 'pamr.predict' Function from 'pamr' CRAN Package |
| nearestShrunkenCentroidPredictInterface-method | Interface for 'pamr.predict' Function from 'pamr' CRAN Package |
| nearestShrunkenCentroidSelectionInterface | Interface for 'pamr.listgenes' Function from 'pamr' CRAN Package |
| nearestShrunkenCentroidSelectionInterface-method | Interface for 'pamr.listgenes' Function from 'pamr' CRAN Package |
| nearestShrunkenCentroidTrainInterface | Interface for 'pamr.train' Function from 'pamr' CRAN Package |
| nearestShrunkenCentroidTrainInterface-method | Interface for 'pamr.train' Function from 'pamr' CRAN Package |
| pamrtrained | Trained pamr Object |
| pamrtrained-class | Trained pamr Object |
| performance | Container for Storing Classification Results |
| performance-method | Container for Storing Classification Results |
| performancePlot | Plot Performance Measures for Various Classifications |
| performancePlot-method | Plot Performance Measures for Various Classifications |
| plotFeatureClasses | Plot Density and Scatterplot for Genes By Class |
| plotFeatureClasses-method | Plot Density and Scatterplot for Genes By Class |
| predictions | Container for Storing Classification Results |
| predictions-method | Container for Storing Classification Results |
| PredictParams | Parameters for Classifier Prediction |
| PredictParams-class | Parameters for Classifier Prediction |
| PredictParams-method | Parameters for Classifier Prediction |
| previousSelection | Automated Selection of Previously Selected Features |
| previousSelection-method | Automated Selection of Previously Selected Features |
| rankingPlot | Plot Pair-wise Overlap of Ranked Features |
| rankingPlot-method | Plot Pair-wise Overlap of Ranked Features |
| ResubstituteParams | Parameters for Resubstitution Error Calculation |
| ResubstituteParams-class | Parameters for Resubstitution Error Calculation |
| ResubstituteParams-method | Parameters for Resubstitution Error Calculation |
| ROCplot | Plot Receiver Operating Curve Graphs for Classification Results |
| ROCplot-method | Plot Receiver Operating Curve Graphs for Classification Results |
| runTest | Perform a Single Classification |
| runTest-method | Perform a Single Classification |
| runTests | Reproducibly Run Various Kinds of Cross-Validation |
| runTests-method | Reproducibly Run Various Kinds of Cross-Validation |
| samplesMetricMap | Plot a Grid of Sample Error Rates or Accuracies |
| samplesMetricMap-method | Plot a Grid of Sample Error Rates or Accuracies |
| selectionPlot | Plot Pair-wise Overlap or Selection Size Distribution of Selected Features |
| selectionPlot-method | Plot Pair-wise Overlap or Selection Size Distribution of Selected Features |
| SelectParams | Parameters for Feature Selection |
| SelectParams-class | Parameters for Feature Selection |
| SelectParams-method | Parameters for Feature Selection |
| SelectResult | Container for Storing Feature Selection Results |
| SelectResult-class | Container for Storing Feature Selection Results |
| SelectResult-method | Container for Storing Feature Selection Results |
| show-method | Container for Storing Classification Results |
| show-method | Container for Storing Feature Selection Results |
| subtractFromLocation | Subtract All Feature Measurements from Location |
| subtractFromLocation-method | Subtract All Feature Measurements from Location |
| totalPredictions | Container for Storing Classification Results |
| totalPredictions-method | Container for Storing Classification Results |
| TrainParams | Parameters for Classifier Training |
| TrainParams-class | Parameters for Classifier Training |
| TrainParams-method | Parameters for Classifier Training |
| TransformParams | Parameters for Data Transformation |
| TransformParams-class | Parameters for Data Transformation |
| TransformParams-method | Parameters for Data Transformation |
| tunedParameters | Container for Storing Classification Results |
| tunedParameters-method | Container for Storing Classification Results |