Hierarchy For All Packages

Package Hierarchies:

de.unibi.techfak.jpredictor, de.unibi.techfak.jpredictor.clustering, de.unibi.techfak.jpredictor.evolution, de.unibi.techfak.jpredictor.gui, de.unibi.techfak.jpredictor.motifs, de.unibi.techfak.jpredictor.operator, de.unibi.techfak.jpredictor.sequences, de.unibi.techfak.misc

Class Hierarchy

• java.lang.Object
  • javax.swing.AbstractCellEditor (implements javax.swing.CellEditor, java.io.Serializable)
    • de.unibi.techfak.jpredictor.gui.MotifCheckTree.CheckBoxNodeEditor (implements javax.swing.tree.TreeCellEditor)
  • java.util.AbstractCollection<E> (implements java.util.Collection<E>)
    • java.util.AbstractList<E> (implements java.util.List<E>)
      • java.util.Vector<E> (implements java.lang.Cloneable, java.util.List<E>, java.util.RandomAccess, java.io.Serializable)
        • de.unibi.techfak.jpredictor.motifs.MotifList
  • de.unibi.techfak.jpredictor.clustering.Clustering
    • de.unibi.techfak.jpredictor.clustering.ForwardClustering
    • de.unibi.techfak.jpredictor.clustering.GreedyClustering
    • de.unibi.techfak.jpredictor.clustering.RelationalCalculation
  • java.awt.Component (implements java.awt.image.ImageObserver, java.awt.MenuContainer, java.io.Serializable)
    • java.awt.Container
      • javax.swing.JComponent (implements java.io.Serializable)
        • javax.swing.JPanel (implements javax.accessibility.Accessible)
          • de.unibi.techfak.jpredictor.gui.MainPanel (implements java.awt.event.ActionListener)
          • de.unibi.techfak.jpredictor.gui.ScorePlotBrowser (implements java.awt.event.ActionListener, javax.swing.event.ChangeListener)
          • de.unibi.techfak.jpredictor.gui.StatusBar
        • javax.swing.JScrollPane (implements javax.accessibility.Accessible, javax.swing.ScrollPaneConstants)
          • de.unibi.techfak.jpredictor.gui.MotifTree (implements java.awt.event.ActionListener)
            • de.unibi.techfak.jpredictor.gui.MotifCheckTree
            • de.unibi.techfak.jpredictor.gui.MotifDistanceTree
        • de.unibi.techfak.jpredictor.gui.ScorePlotBrowser.ScorePlotArea (implements java.awt.event.AdjustmentListener, javax.swing.event.MouseInputListener)
        • de.unibi.techfak.jpredictor.gui.ScorePlotBrowser.SequencePlotArea (implements java.awt.event.AdjustmentListener)
      • java.awt.Panel (implements javax.accessibility.Accessible)
        • java.applet.Applet
          • javax.swing.JApplet (implements javax.accessibility.Accessible, javax.swing.RootPaneContainer)
            • de.unibi.techfak.jpredictor.jPREdictor
      • java.awt.Window (implements javax.accessibility.Accessible)
        • java.awt.Dialog
          • javax.swing.JDialog (implements javax.accessibility.Accessible, javax.swing.RootPaneContainer, javax.swing.WindowConstants)
            • de.unibi.techfak.jpredictor.gui.CutoffCalculator (implements java.awt.event.ActionListener, java.awt.event.FocusListener)
            • de.unibi.techfak.jpredictor.gui.MotifMaker (implements java.awt.event.ActionListener, javax.swing.event.ChangeListener)
            • de.unibi.techfak.jpredictor.gui.TextInsertDialog (implements java.beans.PropertyChangeListener)
        • java.awt.Frame (implements java.awt.MenuContainer)
          • javax.swing.JFrame (implements javax.accessibility.Accessible, javax.swing.RootPaneContainer, javax.swing.WindowConstants)
            • de.unibi.techfak.jpredictor.gui.MainWindow
  • de.unibi.techfak.jpredictor.gui.Distance (implements java.lang.Cloneable)
  • de.unibi.techfak.jpredictor.motifs.FoundMotifStruct (implements java.lang.Cloneable, java.lang.Comparable<T>)
  • de.unibi.techfak.jpredictor.gui.GuiTools
  • de.unibi.techfak.misc.IOTools
  • de.unibi.techfak.jpredictor.sequences.MappedCharSequence (implements java.lang.CharSequence)
    • de.unibi.techfak.jpredictor.sequences.Sequence
  • de.unibi.techfak.misc.Marker (implements de.unibi.techfak.misc.Markable)
  • de.unibi.techfak.misc.MathTools
  • de.unibi.techfak.jpredictor.gui.MotifCheckTree.CheckBoxNode
  • de.unibi.techfak.jpredictor.gui.MotifCheckTree.CheckBoxNodeRenderer (implements javax.swing.tree.TreeCellRenderer)
  • de.unibi.techfak.jpredictor.evolution.MotifEvolution
    • de.unibi.techfak.jpredictor.evolution.MotifEvolutionES
      • de.unibi.techfak.jpredictor.evolution.MotifEvolutionRewardedSelection
    • de.unibi.techfak.jpredictor.evolution.MotifEvolutionFull
  • de.unibi.techfak.jpredictor.motifs.MotifFilter
  • de.unibi.techfak.jpredictor.motifs.MotifSearchAdapter (implements de.unibi.techfak.jpredictor.motifs.MotifSearcher)
    • de.unibi.techfak.jpredictor.motifs.Motif (implements java.lang.Cloneable, java.lang.Comparable<T>, de.unibi.techfak.misc.Markable, de.unibi.techfak.jpredictor.motifs.SequenceWindowScorer)
      • de.unibi.techfak.jpredictor.motifs.MultiMotif
        • de.unibi.techfak.jpredictor.motifs.DoubleMotif
      • de.unibi.techfak.jpredictor.motifs.PSPMotif (implements de.unibi.techfak.jpredictor.motifs.MotifSearchWithThreshold)
        • de.unibi.techfak.jpredictor.motifs.PSSMotif
      • de.unibi.techfak.jpredictor.motifs.RegularExpressionMotif (implements de.unibi.techfak.jpredictor.motifs.MotifSearchWithError)
        • de.unibi.techfak.jpredictor.motifs.SequenceMotif
  • de.unibi.techfak.jpredictor.motifs.MotifSearchAdapter.SearchFields
  • de.unibi.techfak.jpredictor.gui.MouseOverHintManager (implements java.awt.event.MouseListener)
  • de.unibi.techfak.jpredictor.operator.Operator (implements de.unibi.techfak.jpredictor.operator.IOperator)
  • de.unibi.techfak.jpredictor.operator.OptionFile
  • java.io.OutputStream (implements java.io.Closeable, java.io.Flushable)
    • de.unibi.techfak.misc.GUIOutputStream
    • de.unibi.techfak.misc.MultiplyOutputStream
    • de.unibi.techfak.misc.NilOutputStream
  • de.unibi.techfak.misc.Queue
  • java.io.Reader (implements java.io.Closeable, java.lang.Readable)
    • de.unibi.techfak.jpredictor.sequences.MultiFileReader
    • de.unibi.techfak.jpredictor.sequences.ResetableReader
    • de.unibi.techfak.jpredictor.sequences.SequenceReader
      • de.unibi.techfak.jpredictor.sequences.FastaReader
      • de.unibi.techfak.jpredictor.sequences.RawReader
  • de.unibi.techfak.jpredictor.clustering.RelationMeasure (implements java.lang.Comparable<T>, de.unibi.techfak.jpredictor.clustering.Computable)
    • de.unibi.techfak.jpredictor.clustering.MatrixRelationMeasure
      • de.unibi.techfak.jpredictor.clustering.MatrixAlignment
      • de.unibi.techfak.jpredictor.clustering.MatrixSimilarity
        • de.unibi.techfak.jpredictor.clustering.MatrixDistance
        • de.unibi.techfak.jpredictor.clustering.MatrixLikelihood
        • de.unibi.techfak.jpredictor.clustering.MatrixLoglikelihood
    • de.unibi.techfak.jpredictor.clustering.MotifAlignment
      • de.unibi.techfak.jpredictor.clustering.MultiMotifAlignment
      • de.unibi.techfak.jpredictor.clustering.SingleMotifAlignment
    • de.unibi.techfak.jpredictor.clustering.VectorRelationMeasure
      • de.unibi.techfak.jpredictor.clustering.LikelihoodMeasure
      • de.unibi.techfak.jpredictor.clustering.MinkowskiDistance
        • de.unibi.techfak.jpredictor.clustering.EuclideanDistance
        • de.unibi.techfak.jpredictor.clustering.ManhattanDistance
  • de.unibi.techfak.jpredictor.operator.ScoreBand
  • de.unibi.techfak.jpredictor.operator.ScoredSequenceStruct (implements java.lang.Cloneable, java.lang.Comparable<T>)
  • de.unibi.techfak.jpredictor.operator.ScoringFactory
  • de.unibi.techfak.jpredictor.sequences.SequenceEnumerator (implements de.unibi.techfak.jpredictor.sequences.SequenceEnumeration)
  • de.unibi.techfak.jpredictor.sequences.SequenceFilter
  • de.unibi.techfak.jpredictor.sequences.SequenceInformationBlock
  • de.unibi.techfak.jpredictor.operator.States
    • de.unibi.techfak.jpredictor.operator.DefaultCommunicator (implements de.unibi.techfak.jpredictor.operator.ICommunicator)
  • de.unibi.techfak.jpredictor.operator.States.SequenceStore
  • java.lang.Thread (implements java.lang.Runnable)
    • de.unibi.techfak.jpredictor.gui.CutoffCalculator.CutoffCalcThread
    • de.unibi.techfak.jpredictor.gui.MainPanel.ActionThread
    • de.unibi.techfak.jpredictor.operator.Operator.SearchThread
  • java.lang.Throwable (implements java.io.Serializable)
    • java.lang.Exception
      • java.io.IOException
        • de.unibi.techfak.jpredictor.sequences.NewSequenceBlockException
      • de.unibi.techfak.jpredictor.sequences.NoMoreSequencesAvailableException
      • java.lang.RuntimeException
        • de.unibi.techfak.jpredictor.motifs.CycleInMultiMotifExeption
        • java.lang.IndexOutOfBoundsException
          • de.unibi.techfak.jpredictor.sequences.ResetNotSupportedException
        • de.unibi.techfak.jpredictor.motifs.MissingCharSequenceException
        • de.unibi.techfak.jpredictor.motifs.MissingMotifException
        • de.unibi.techfak.jpredictor.motifs.MotifNotCompleteException

Interface Hierarchy

• de.unibi.techfak.jpredictor.clustering.Computable
• de.unibi.techfak.jpredictor.operator.ICommunicator
• de.unibi.techfak.jpredictor.operator.IOperator
• de.unibi.techfak.misc.Markable
• de.unibi.techfak.jpredictor.motifs.MotifSearcher
  • de.unibi.techfak.jpredictor.motifs.MotifSearchWithError
  • de.unibi.techfak.jpredictor.motifs.MotifSearchWithThreshold
  • de.unibi.techfak.jpredictor.motifs.SequenceWindowScorer
• de.unibi.techfak.jpredictor.sequences.SequenceEnumeration