Man pages for ClassifyR
A framework for cross-validated classification problems, with applications to differential variability and differential distribution testing
| asthmaDataset | Asthma RNA Abundance and Patient Classes |
| bartlettSelection | Selection of Differential Variability with Bartlett Statistic |
| calcPerformance | Add Performance Calculations to a ClassifyResult Object or... |
| characterOrDataFrame-class | Union of a Character and a DataFrame |
| classifyInterface | An Interface for PoiClaClu Package's Classify Function |
| ClassifyResult-class | Container for Storing Classification Results |
| differentMeansSelection | Selection of Differentially Abundant Features |
| distribution | Get Frequencies of Feature Selection and Sample Errors |
| dlda-class | Trained dlda Object |
| DLDAinterface | An Interface for sparsediscrim Package's dlda Function |
| DMDselection | Selection of Differential Distributions with Differences in... |
| easyHardClassifier | Two-stage Classification Using Easy-to-collect Data Set and... |
| EasyHardClassifier-class | Container for a Pair of Trained Classifiers |
| easyHardFeatures | Extract Chosen Features from an EasyHardClassifier Object |
| edgeRselection | Feature Selection Based on Differential Expression for Count... |
| edgesToHubNetworks | Convert a Two-column Matrix or Data Frame into a Hub Node... |
| elasticNetFeatures | Extract Vectors of Ranked and Selected Features From an... |
| elasticNetGLMinterface | An Interface for glmnet Package's glmnet Function |
| FeatureSetCollection-class | Container for Storing A Collection of Sets |
| FeatureSetCollectionOrNULL-class | Union of a FeatureSetCollection and NULL |
| featureSetSummary | Transform a Table of Feature Abundances into a Table of... |
| fisherDiscriminant | Classification Using Fisher's LDA |
| forestFeatures | Extract Vectors of Ranked and Selected Features From a Random... |
| functionOrList-class | Union of Functions and List of Functions |
| functionOrNULL-class | Union of A Function and NULL |
| getLocationsAndScales | Calculate Location and Scale |
| integerOrNumeric-class | Union of a Integer and a Numeric |
| interactorDifferences | Convert Individual Features into Differences Between Binary... |
| knnInterface | An Interface for class Package's knn Function |
| KolmogorovSmirnovSelection | Selection of Differential Distributions with... |
| kTSPclassifier | Classification Using k Pairs of Features With Relative... |
| KullbackLeiblerSelection | Selection of Differential Distributions with Kullback-Leibler... |
| leveneSelection | Selection of Differential Variability with Levene Statistic |
| likelihoodRatioSelection | Selection of Differential Distributions with Likelihood Ratio... |
| limmaSelection | Selection of Differentially Abundant Features |
| listOrCharacterOrNULL-class | Union of a List and a Character Vector and NULL |
| listOrNULL-class | Union of a List and NULL |
| mixmodels | Classification based on Differential Distribution utilising... |
| MixModelsListsSet-class | Container for a List of Lists Containing Mixture Models |
| multnet-class | Trained multnet Object |
| naiveBayesKernel | Classification Using A Bayes Classifier with Kernel Density... |
| networkCorrelationsSelection | Selection of Differentially Correlated Hub Sub-networks |
| NSCpredictInterface | Interface for 'pamr.predict' Function from 'pamr' CRAN... |
| NSCselectionInterface | Interface for 'pamr.listgenes' Function from 'pamr' CRAN... |
| NSCtrainInterface | Interface for 'pamr.train' Function from 'pamr' CRAN Package |
| pairsDifferencesSelection | Selection of Pairs of Features that are Different Between... |
| pamrtrained-class | Trained pamr Object |
| performancePlot | Plot Performance Measures for Various Classifications |
| plotFeatureClasses | Plot Density, Scatterplot, Parallel Plot or Bar Chart for... |
| PredictParams-class | Parameters for Classifier Prediction |
| previousSelection | Automated Selection of Previously Selected Features |
| previousTrained | Automated Usage of Previously Created Classifiers |
| randomForest-class | Trained randomForest Object |
| randomForestInterface | An Interface for randomForest Package's randomForest Function |
| rankingPlot | Plot Pair-wise Overlap of Ranked Features |
| ResubstituteParams-class | Parameters for Resubstitution Error Calculation |
| ROCplot | Plot Receiver Operating Curve Graphs for Classification... |
| runTest | Perform a Single Classification |
| runTests | Reproducibly Run Various Kinds of Cross-Validation |
| samplesMetricMap | Plot a Grid of Sample Error Rates or Accuracies |
| selectionPlot | Plot Pair-wise Overlap or Selection Size Distribution of... |
| SelectParams-class | Parameters for Feature Selection |
| SelectResult-class | Container for Storing Feature Selection Results |
| subtractFromLocation | Subtract Numeric Feature Measurements from a Location |
| svm-class | Trained svm Object |
| SVMinterface | An Interface for e1071 Package's Support Vector Machine... |
| TrainParams-class | Parameters for Classifier Training |
| TransformParams-class | Parameters for Data Transformation |
