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waitForSync()
- Method in class startup.
FunSiPWorkflow
This method is used for synchronization purposes between the different spawned threads.
WaveContentClassificationFeature
- Class in
util.classificationFeatures.implementations.test
WaveContentClassificationFeature()
- Constructor for class util.classificationFeatures.implementations.test.
WaveContentClassificationFeature
WekaSVM
- Class in
classifier
This class represents the implementation of the classifier interface, suited to be used with the SMO (SVM) implementation of the WEKA(TM) machine learning library.
WekaSVM(Logger, ClassificationAction)
- Constructor for class classifier.
WekaSVM
Constructor, just initiates the necessary variables.
windowActivated(WindowEvent)
- Method in class main.
FunSiPGui
windowActivated(WindowEvent)
- Method in class startup.gui.
WizardFramework
windowClosed(WindowEvent)
- Method in class main.
FunSiPGui
windowClosed(WindowEvent)
- Method in class startup.gui.
WizardFramework
windowClosing(WindowEvent)
- Method in class main.
FunSiPGui
windowClosing(WindowEvent)
- Method in class startup.gui.
WizardFramework
windowDeactivated(WindowEvent)
- Method in class main.
FunSiPGui
windowDeactivated(WindowEvent)
- Method in class startup.gui.
WizardFramework
windowDeiconified(WindowEvent)
- Method in class main.
FunSiPGui
windowDeiconified(WindowEvent)
- Method in class startup.gui.
WizardFramework
windowGainedFocus(WindowEvent)
- Method in class startup.gui.
WizardFramework
windowIconified(WindowEvent)
- Method in class main.
FunSiPGui
windowIconified(WindowEvent)
- Method in class startup.gui.
WizardFramework
windowLostFocus(WindowEvent)
- Method in class startup.gui.
WizardFramework
windowOpened(WindowEvent)
- Method in class main.
FunSiPGui
windowOpened(WindowEvent)
- Method in class startup.gui.
WizardFramework
WizardFramework
- Class in
startup.gui
WizardFramework(FunSiPGui, JFrame)
- Constructor for class startup.gui.
WizardFramework
WizardFramework.WIZARD_STATE
- Enum in
startup.gui
writeAcceptors(BufferedWriter, BufferedWriter, ExtractTrainingData.AnnotationData)
- Method in class util.parsers.fasta.
ExtractTrainingData
writeClassification(List<ClassificationResult>)
- Method in class util.io.
OutputClassification
This method writes the classification (of the possible splicesites in a testfile) to an outputfile whose name is taken from the testfileheader.
writeConclomOne(String)
- Method in class var.
SimpleExperimenter
writeConclomZero(String)
- Method in class var.
SimpleExperimenter
writeCrossValidation(CrossValidationResult, Options, Logger, boolean, File, int, int, int, int)
- Static method in class util.io.
FileUtils
This methods writes the results of a crossvalidation to a file.
writeCrossValidation(CrossValidationResult, File, int, int, int, int)
- Method in class util.io.
IOUtils
This methods writes the results of a crossvalidation to a file.
writeDonors(BufferedWriter, BufferedWriter, ExtractTrainingData.AnnotationData)
- Method in class util.parsers.fasta.
ExtractTrainingData
writeFeatureSelectionFile(String, List<Integer>)
- Method in class util.featureSelection.
FeatureSelectionStub
writeFeatureSelectionFileFull(String, List<ValPosCombination>)
- Method in class util.featureSelection.
FeatureSelectionStub
writeFull(boolean, String, String)
- Method in class var.
SimpleExperimenter
writeNtrData(File, List<List<Double>>, Classifier.DATA_TYPE)
- Method in class util.io.
NtrFileSupport
writeResults(File, List<RocCurveData>)
- Method in class util.io.
CrossValidationOutput
writeRocCurveData(double[], double[], String)
- Method in class util.io.
CrossValidationOutput
writeRocGnuPlotCommand(List<RocCurveData>, String, boolean)
- Static method in class util.io.
FileUtils
This method generates the Gnuplot-commands to display the roc-curves (only possible with cross-validation).
writeRocGnuPlotCommand(List<RocCurveData>, String)
- Method in class util.io.
IOUtils
This method generates the Gnuplot-commands to display the roc-curves (only possible with cross-validation).
writeTemporaryFeatureData(String, boolean, List<List<Double>>, Classifier.DATA_TYPE)
- Method in interface classifier.
Classifier
This method writes the temporary featuredata (being all the features extracted from 1 sequence, each feature in a different list) to a file.
writeTemporaryFeatureData(String, List<List<Double>>, Classifier.DATA_TYPE)
- Method in interface classifier.
Classifier
This method writes the temporary featuredata (being all the features extracted from 1 sequence, each feature in a different list) to a file.
writeTemporaryFeatureData(String, boolean, List<List<Double>>, Classifier.DATA_TYPE)
- Method in class classifier.
WekaSVM
This method writes the temporary featuredata (being all the features extracted from 1 sequence, each feature in a different list) to a file.
writeTemporaryFeatureData(String, List<List<Double>>, Classifier.DATA_TYPE)
- Method in class classifier.
WekaSVM
This method writes the temporary featuredata (being all the features extracted from 1 sequence, each feature in a different list) to a file.
writeTrainingData(List<String>, String)
- Method in class test.
ExtractData
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