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W

weight - Variable in class de.jstacs.algorithms.graphs.Edge
The weight of the edge.
WeightedDataSetFactory(DataSet.WeightedDataSetFactory.SortOperation, DataSet...) - Constructor for class de.jstacs.data.DataSet.WeightedDataSetFactory
WeightedDataSetFactory(DataSet.WeightedDataSetFactory.SortOperation, DataSet, double[]) - Constructor for class de.jstacs.data.DataSet.WeightedDataSetFactory
Creates a new DataSet.WeightedDataSetFactory on the given DataSet and an array of weights with DataSet.WeightedDataSetFactory.SortOperation sort.
WeightedDataSetFactory(DataSet.WeightedDataSetFactory.SortOperation, DataSet, double[], int) - Constructor for class de.jstacs.data.DataSet.WeightedDataSetFactory
Creates a new DataSet.WeightedDataSetFactory on the given DataSet and an array of weights with a given length and DataSet.WeightedDataSetFactory.SortOperation sort.
WeightedDataSetFactory(DataSet.WeightedDataSetFactory.SortOperation, DataSet[], double[][], int) - Constructor for class de.jstacs.data.DataSet.WeightedDataSetFactory
Creates a new DataSet.WeightedDataSetFactory on the given array of DataSets and an array of weights with a given length and DataSet.WeightedDataSetFactory.SortOperation sort.
weightPercentile(double[], double) - Static method in class de.jstacs.utils.ToolBox
Returns the element in the sorted variant of array (considered in descending order) that yields percent of the cumulative value of array elements.
weights - Variable in class de.jstacs.classifiers.differentiableSequenceScoreBased.AbstractOptimizableFunction
The weights for the data.
weights - Variable in class de.jstacs.sequenceScores.statisticalModels.trainable.mixture.AbstractMixtureTrainSM
The probabilities for each component.
wiki() - Method in class de.jstacs.tools.ui.cli.CLI
Creates the HTML code for wiki entries for the supplied tools.
worker - Variable in class de.jstacs.classifiers.differentiableSequenceScoreBased.AbstractMultiThreadedOptimizableFunction
The worker threads for computing value and gradient of this AbstractMultiThreadedOptimizableFunction
write(Writer, CharSequence) - Static method in class de.jstacs.io.FileManager
This method saves a StringBuffer to a given Writer.
write(int) - Method in class de.jstacs.utils.RegExFilterOutputStream
 
write(Object) - Method in class de.jstacs.utils.SafeOutputStream
Writes an Object using Object.toString().
write(int) - Method in class de.jstacs.utils.SafeOutputStream
 
writeFile(File, CharSequence) - Static method in class de.jstacs.io.FileManager
This method saves a StringBuffer to a given File.
writeFile(String, CharSequence) - Static method in class de.jstacs.io.FileManager
This method saves a StringBuffer to a File with user-specified file name.
writeln() - Method in class de.jstacs.utils.SafeOutputStream
Writes a line break.
writeln(Object) - Method in class de.jstacs.utils.SafeOutputStream
Writes an Object and a line break.
writeOutput(DataSetResult, File) - Method in class de.jstacs.results.savers.DataSetResultSaver
 
writeOutput(DataSetResult, StringBuffer) - Method in class de.jstacs.results.savers.DataSetResultSaver
 
writeOutput(ListResult, File) - Method in class de.jstacs.results.savers.ListResultSaver
 
writeOutput(ListResult, StringBuffer) - Method in class de.jstacs.results.savers.ListResultSaver
 
writeOutput(PlotGeneratorResult, File) - Method in class de.jstacs.results.savers.PlotGeneratorResultSaver
 
writeOutput(PlotGeneratorResult, StringBuffer) - Method in class de.jstacs.results.savers.PlotGeneratorResultSaver
Deprecated.
writeOutput(T, File) - Method in interface de.jstacs.results.savers.ResultSaver
Writes the output (i.e., the result contents) to the supplied file.
writeOutput(T, StringBuffer) - Method in interface de.jstacs.results.savers.ResultSaver
Appends the output (i.e., the result contents) to the supplied StringBuffer
writeOutput(ResultSetResult, File) - Method in class de.jstacs.results.savers.ResultSetResultSaver
 
writeOutput(ResultSetResult, StringBuffer) - Method in class de.jstacs.results.savers.ResultSetResultSaver
 
writeOutput(StorableResult, File) - Method in class de.jstacs.results.savers.StorableResultSaver
 
writeOutput(StorableResult, StringBuffer) - Method in class de.jstacs.results.savers.StorableResultSaver
 
writeOutput(TextResult, File) - Method in class de.jstacs.results.savers.TextResultSaver
 
writeOutput(TextResult, StringBuffer) - Method in class de.jstacs.results.savers.TextResultSaver
 
writeOutput() - Method in class de.jstacs.tools.ui.galaxy.GalaxyAdaptor
Writes all output files of one program execution.
writeOutputStream(OutputStream, CharSequence) - Static method in class de.jstacs.io.FileManager
This method saves a StringBuffer to a given OutputStream.
writer - Variable in class de.jstacs.sequenceScores.statisticalModels.trainable.discrete.inhomogeneous.FSDAGModelForGibbsSampling
The writer for the paramsFile in a sampling.
writer - Variable in class de.jstacs.sequenceScores.statisticalModels.trainable.hmm.states.emissions.discrete.AbstractConditionalDiscreteEmission
The writer for the paramsFile in a sampling.
writer - Variable in class de.jstacs.sequenceScores.statisticalModels.trainable.hmm.transitions.HigherOrderTransition
The writer for the paramsFile in a sampling.
writeTensorToFile(String, OutputStream) - Method in class de.jstacs.algorithms.graphs.tensor.Tensor
This method writes a Tensor in the exchange format in a specified file.
WrongAlphabetException - Exception in de.jstacs.data
A WrongAlphabetException is thrown if the given Alphabet or AlphabetContainer does not support some data.
WrongAlphabetException() - Constructor for exception de.jstacs.data.WrongAlphabetException
Creates a new WrongAlphabetException with standard error message ("The data of the selected file does not match the entered alphabet.").
WrongAlphabetException(String) - Constructor for exception de.jstacs.data.WrongAlphabetException
Creates a new WrongAlphabetException with given error message.
WrongLengthException - Exception in de.jstacs.data
A WrongLengthException is thrown if a given (sub)sequence length is not correct.
WrongLengthException(int) - Constructor for exception de.jstacs.data.WrongLengthException
Simple Constructor.
WrongLengthException(String) - Constructor for exception de.jstacs.data.WrongLengthException
Creates a new WrongLengthException with your own message.
WrongParameterTypeException(String) - Constructor for exception de.jstacs.io.ParameterSetParser.WrongParameterTypeException
Creates a new instance of a ParameterSetParser.WrongParameterTypeException with a given error message.
WrongSequenceTypeException - Exception in de.jstacs.data.sequences
This Exception indicates that the type of the sequence ( ByteSequence, ShortSequence, ...) is not suitable for a given AlphabetContainer.
WrongSequenceTypeException() - Constructor for exception de.jstacs.data.sequences.WrongSequenceTypeException
This constructor creates a new WrongSequenceTypeException with default error message ("The sequence type is not suitable for this AlphabetContainer.").
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