Hierarchy For All Packages

Package Hierarchies:

org.geworkbench.algorithms, org.geworkbench.analysis, org.geworkbench.bison, org.geworkbench.bison.algorithm, org.geworkbench.bison.algorithm.classification, org.geworkbench.bison.algorithm.discovery, org.geworkbench.bison.annotation, org.geworkbench.bison.datastructure.biocollections, org.geworkbench.bison.datastructure.biocollections.gsea, org.geworkbench.bison.datastructure.biocollections.medusa, org.geworkbench.bison.datastructure.biocollections.microarrays, org.geworkbench.bison.datastructure.biocollections.pca, org.geworkbench.bison.datastructure.biocollections.sequences, org.geworkbench.bison.datastructure.biocollections.views, org.geworkbench.bison.datastructure.bioobjects, org.geworkbench.bison.datastructure.bioobjects.markers, org.geworkbench.bison.datastructure.bioobjects.markers.annotationparser, org.geworkbench.bison.datastructure.bioobjects.markers.genotype, org.geworkbench.bison.datastructure.bioobjects.markers.goterms, org.geworkbench.bison.datastructure.bioobjects.microarray, org.geworkbench.bison.datastructure.bioobjects.sequence, org.geworkbench.bison.datastructure.bioobjects.structure, org.geworkbench.bison.datastructure.complex.panels, org.geworkbench.bison.datastructure.complex.pattern, org.geworkbench.bison.datastructure.complex.pattern.matrix, org.geworkbench.bison.datastructure.complex.pattern.sequence, org.geworkbench.bison.datastructure.properties, org.geworkbench.bison.model.analysis, org.geworkbench.bison.model.clusters, org.geworkbench.bison.parsers, org.geworkbench.bison.parsers.resources, org.geworkbench.bison.testing, org.geworkbench.bison.testing.clusters, org.geworkbench.bison.util, org.geworkbench.bison.util.colorcontext, org.geworkbench.builtin, org.geworkbench.builtin.projects, org.geworkbench.builtin.projects.comments, org.geworkbench.builtin.projects.experimentinformation, org.geworkbench.builtin.projects.history, org.geworkbench.builtin.projects.remoteresources, org.geworkbench.builtin.projects.remoteresources.carraydata, org.geworkbench.builtin.projects.remoteresources.query, org.geworkbench.builtin.projects.util, org.geworkbench.components.parsers, org.geworkbench.components.parsers.microarray, org.geworkbench.components.parsers.patterns, org.geworkbench.components.parsers.sequences, org.geworkbench.engine, org.geworkbench.engine.builder, org.geworkbench.engine.cascript, org.geworkbench.engine.ccm, org.geworkbench.engine.config, org.geworkbench.engine.config.events, org.geworkbench.engine.config.rules, org.geworkbench.engine.management, org.geworkbench.engine.preferences, org.geworkbench.engine.properties, org.geworkbench.engine.skin, org.geworkbench.engine.test, org.geworkbench.events, org.geworkbench.events.listeners, org.geworkbench.util, org.geworkbench.util.annotation, org.geworkbench.util.associationdiscovery.cluster, org.geworkbench.util.associationdiscovery.statistics, org.geworkbench.util.function, org.geworkbench.util.function.bimodalGaussian, org.geworkbench.util.function.functionParameters, org.geworkbench.util.microarrayutils, org.geworkbench.util.network, org.geworkbench.util.pathwaydecoder, org.geworkbench.util.pathwaydecoder.mutualinformation, org.geworkbench.util.patterns, org.geworkbench.util.promoter, org.geworkbench.util.promoter.pattern, org.geworkbench.util.sequences, org.geworkbench.util.threading, org.geworkbench.util.visualproperties

Class Hierarchy

• java.lang.Object
  • org.geworkbench.analysis.AbstractAnalysis (implements org.geworkbench.bison.model.analysis.Analysis, java.util.Observer, java.io.Serializable)
    • org.geworkbench.analysis.AbstractGridAnalysis
    • org.geworkbench.algorithms.AbstractTraining (implements org.geworkbench.bison.model.analysis.ClusteringAnalysis)
    • org.geworkbench.bison.model.analysis.FilteringAnalysis
  • org.geworkbench.analysis.AbstractAnalysisLabelComparator (implements java.util.Comparator<T>)
  • org.geworkbench.bison.model.clusters.AbstractCluster (implements org.geworkbench.bison.model.clusters.Cluster, java.io.Serializable)
    • org.geworkbench.bison.model.clusters.DefaultHierCluster (implements org.geworkbench.bison.model.clusters.HierCluster, java.io.Serializable)
      • org.geworkbench.bison.model.clusters.MarkerHierCluster
      • org.geworkbench.bison.model.clusters.MicroarrayHierCluster
      • org.geworkbench.bison.model.clusters.SimpleHierCluster
    • org.geworkbench.bison.model.clusters.DefaultSOMCluster (implements java.io.Serializable, org.geworkbench.bison.model.clusters.SOMCluster)
      • org.geworkbench.bison.model.clusters.LeafSOMCluster
  • java.util.AbstractCollection<E> (implements java.util.Collection<E>)
    • java.util.AbstractList<E> (implements java.util.List<E>)
      • java.util.ArrayList<E> (implements java.lang.Cloneable, java.util.List<E>, java.util.RandomAccess, java.io.Serializable)
        • org.geworkbench.bison.datastructure.biocollections.Collection<T> (implements org.geworkbench.bison.datastructure.biocollections.DSCollection<T>)
        • org.geworkbench.bison.datastructure.complex.panels.CSItemList<T> (implements org.geworkbench.bison.datastructure.complex.panels.DSItemList<T>)
          • org.geworkbench.bison.datastructure.complex.panels.CSPanel<T> (implements org.geworkbench.bison.datastructure.complex.panels.DSPanel<T>)
            • org.geworkbench.bison.datastructure.complex.panels.CSAnnotPanel<T,U> (implements org.geworkbench.bison.datastructure.complex.panels.DSAnnotatedPanel<T,U>, org.geworkbench.bison.datastructure.complex.panels.DSPanel<T>)
          • org.geworkbench.bison.datastructure.complex.panels.CSSequentialItemList<T>
            • org.geworkbench.bison.datastructure.biocollections.CSDataSet<T> (implements org.geworkbench.bison.datastructure.biocollections.DSDataSet<T>)
              • org.geworkbench.bison.datastructure.biocollections.CSAncillaryDataSet<T> (implements org.geworkbench.bison.datastructure.biocollections.DSAncillaryDataSet<T>)
                • org.geworkbench.util.pathwaydecoder.mutualinformation.AdjacencyMatrixDataSet (implements org.geworkbench.bison.datastructure.biocollections.DSAncillaryDataSet<T>)
                • org.geworkbench.bison.datastructure.bioobjects.sequence.CSAlignmentResultSet (implements org.geworkbench.bison.datastructure.bioobjects.sequence.DSAlignmentResultSet)
                • org.geworkbench.bison.algorithm.classification.CSClassifier
                  • org.geworkbench.bison.algorithm.classification.CSVisualClassifier
                • org.geworkbench.bison.datastructure.biocollections.gsea.CSGSEAResultDataSet (implements org.geworkbench.bison.datastructure.biocollections.gsea.DSGSEAResultDataSet)
                • org.geworkbench.bison.model.clusters.CSHierClusterDataSet (implements org.geworkbench.bison.model.clusters.DSHierClusterDataSet)
                • org.geworkbench.bison.datastructure.bioobjects.microarray.CSMasterRegulatorResultSet<T> (implements org.geworkbench.bison.datastructure.bioobjects.microarray.DSMasterRagulatorResultSet<T>)
                • org.geworkbench.bison.datastructure.complex.pattern.matrix.CSMatrixReduceSet (implements org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceSet)
                • org.geworkbench.bison.datastructure.biocollections.pca.CSPCADataSet (implements org.geworkbench.bison.datastructure.biocollections.pca.DSPCADataSet)
                • org.geworkbench.bison.datastructure.bioobjects.microarray.CSProbeIntensityArray (implements org.geworkbench.bison.datastructure.bioobjects.microarray.DSProbeIntensityArray)
                • org.geworkbench.bison.datastructure.bioobjects.structure.CSProteinStructure (implements org.geworkbench.bison.datastructure.bioobjects.structure.DSProteinStructure)
                • org.geworkbench.bison.datastructure.bioobjects.structure.CSPrtAnnotResultSet (implements org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtAnnotResultSet)
                • org.geworkbench.bison.datastructure.bioobjects.structure.CSPrtDBResultSet (implements org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtDBResultSet)
                • org.geworkbench.bison.datastructure.bioobjects.microarray.CSSignificanceResultSet<T> (implements org.geworkbench.bison.datastructure.bioobjects.microarray.DSSignificanceResultSet<T>)
                  • org.geworkbench.bison.datastructure.bioobjects.microarray.CSAnovaResultSet<T> (implements org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>)
                  • org.geworkbench.bison.datastructure.bioobjects.microarray.CSTTestResultSet<T> (implements org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>)
                • org.geworkbench.bison.model.clusters.CSSOMClusterDataSet (implements org.geworkbench.bison.model.clusters.DSSOMClusterDataSet)
                • org.geworkbench.util.pathwaydecoder.mutualinformation.EdgeListDataSet (implements org.geworkbench.bison.datastructure.biocollections.DSAncillaryDataSet<T>)
                • org.geworkbench.bison.datastructure.biocollections.GoAnalysisResult
                • org.geworkbench.builtin.projects.ImageData
                • org.geworkbench.bison.datastructure.bioobjects.structure.MarkUsResultDataSet<T>
                • org.geworkbench.bison.datastructure.biocollections.medusa.MedusaDataSet (implements org.geworkbench.bison.datastructure.biocollections.DSAncillaryDataSet<T>)
                • org.geworkbench.util.pathwaydecoder.mutualinformation.MindyDataSet (implements org.geworkbench.bison.datastructure.biocollections.DSAncillaryDataSet<T>)
                • org.geworkbench.util.pathwaydecoder.mutualinformation.NetBoostDataSet (implements org.geworkbench.bison.datastructure.biocollections.DSAncillaryDataSet<T>)
                • org.geworkbench.util.patterns.PatternDB (implements java.io.Serializable)
                • org.geworkbench.bison.datastructure.bioobjects.structure.PudgeResultSet
                • org.geworkbench.bison.datastructure.bioobjects.structure.SkyLineResultDataSet<T>
                • org.geworkbench.bison.datastructure.complex.pattern.SoapParmsDataSet
              • org.geworkbench.bison.datastructure.biocollections.microarrays.CSChipchipSet (implements java.io.Serializable)
              • org.geworkbench.bison.datastructure.biocollections.microarrays.CSMicroarraySet<T> (implements org.geworkbench.bison.datastructure.biocollections.microarrays.DSMicroarraySet<T>)
                • org.geworkbench.bison.datastructure.biocollections.microarrays.CSExprMicroarraySet (implements java.io.Serializable)
              • org.geworkbench.bison.datastructure.biocollections.sequences.CSSequenceSet<T> (implements org.geworkbench.bison.datastructure.biocollections.sequences.DSSequenceSet<T>)
            • org.geworkbench.bison.datastructure.biocollections.CSMarkerVector (implements org.geworkbench.bison.datastructure.complex.panels.DSItemList<T>)
        • org.geworkbench.util.patterns.FlexiblePattern (implements org.geworkbench.bison.datastructure.complex.pattern.sequence.DSMatchedSeqPattern)
  • javax.swing.AbstractListModel (implements javax.swing.ListModel, java.io.Serializable)
    • org.geworkbench.util.AutoListModel<T>
  • java.util.AbstractMap<K,V> (implements java.util.Map<K,V>)
    • java.util.HashMap<K,V> (implements java.lang.Cloneable, java.util.Map<K,V>, java.io.Serializable)
      • org.geworkbench.engine.cascript.CasDataTypeImport
      • org.geworkbench.bison.annotation.CSCriteria<T> (implements org.geworkbench.bison.annotation.DSCriteria<T>)
      • org.geworkbench.bison.util.HashVector<K,V>
      • org.geworkbench.bison.ReferenceImplMap
      • org.geworkbench.engine.management.TypeMap<T>
  • org.geworkbench.bison.parsers.resources.AbstractResource (implements org.geworkbench.bison.parsers.resources.Resource)
    • org.geworkbench.bison.parsers.resources.AffyResource
    • org.geworkbench.bison.parsers.resources.EdgeListResource
    • org.geworkbench.components.parsers.ExpressionResource
    • org.geworkbench.bison.parsers.resources.GenepixResource
    • org.geworkbench.components.parsers.sequences.SequenceResource
  • javax.swing.table.AbstractTableModel (implements java.io.Serializable, javax.swing.table.TableModel)
    • org.geworkbench.util.patterns.PatternTableModel
  • org.geworkbench.util.pathwaydecoder.mutualinformation.AdjacencyMatrix (implements java.io.Serializable)
  • org.geworkbench.bison.parsers.AffymetrixParser
  • org.geworkbench.bison.parsers.AffyParseContext (implements java.io.Serializable)
  • org.geworkbench.bison.model.analysis.AlgorithmExecutionResults
  • org.geworkbench.bison.datastructure.bioobjects.markers.annotationparser.AnnotationParser (implements java.io.Serializable)
  • org.geworkbench.bison.datastructure.bioobjects.markers.annotationparser.APSerializable (implements java.io.Serializable)
  • org.geworkbench.bison.util.ArrayIterator<T> (implements java.util.Iterator<E>)
  • org.geworkbench.util.ArrayUtil
  • junit.framework.Assert
    • junit.framework.TestCase (implements junit.framework.Test)
      • org.geworkbench.bison.testing.AbstractTestDSAnnotationContext
        • org.geworkbench.bison.testing.CSAnnotationContextTest
      • org.geworkbench.bison.testing.BulkTest (implements java.lang.Cloneable)
        • org.geworkbench.bison.testing.CSPanelTest
      • org.geworkbench.engine.test.ComponentClassloaderTest
      • org.geworkbench.bison.testing.CSCriteriaTest
      • org.geworkbench.bison.testing.CSDataSetViewTest
      • org.geworkbench.bison.testing.CSMicroarraySetViewTest
      • org.geworkbench.bison.testing.CSMicroarrayTest
      • org.geworkbench.bison.testing.clusters.DefaultHierClusterTest
  • org.geworkbench.engine.management.Asynchronous (implements org.geworkbench.engine.management.SynchModel)
  • org.geworkbench.util.BinaryEncodeDecode
  • org.geworkbench.engine.management.BisonFactory
  • org.geworkbench.engine.config.events.BroadcastEventRegistry
  • org.geworkbench.util.BrowserLauncher
  • org.geworkbench.builtin.projects.remoteresources.carraydata.CaArray2Experiment (implements java.lang.Comparable<T>, java.io.Serializable)
  • org.geworkbench.bison.parsers.resources.CaArrayResource
  • org.geworkbench.util.function.bimodalGaussian.CalculateDifferenceErrors
  • org.geworkbench.engine.cascript.CaScriptEmulator
  • org.geworkbench.engine.cascript.CasDataType
    • org.geworkbench.engine.cascript.CasCallReturn
    • org.geworkbench.engine.cascript.CasDataPlug
    • org.geworkbench.engine.cascript.CasReturn
  • org.geworkbench.engine.cascript.CasEngine
  • org.geworkbench.engine.cascript.CasPreData
  • org.geworkbench.util.network.CellularNetWorkElementInformation (implements java.io.Serializable)
  • antlr.CharScanner (implements antlr.TokenStream)
    • org.geworkbench.engine.cascript.CASLexer (implements org.geworkbench.engine.cascript.CAStokensTokenTypes, antlr.TokenStream)
  • java.lang.ClassLoader
    • java.security.SecureClassLoader
      • java.net.URLClassLoader
        • org.geworkbench.engine.management.ComponentClassLoader
  • org.geworkbench.engine.management.ClassSearcher
  • org.geworkbench.util.associationdiscovery.statistics.ClusterStatistics
  • org.geworkbench.util.ClusterUtils
  • org.geworkbench.bison.util.colorcontext.ColorContextUtils
  • org.geworkbench.util.Combinations
  • org.geworkbench.builtin.projects.comments.CommentsPanel (implements org.geworkbench.engine.config.VisualPlugin)
  • org.geworkbench.util.function.bimodalGaussian.CompareSigmaEstimates
  • org.geworkbench.util.function.bimodalGaussian.ComparisonHistogram
  • 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.JFileChooser (implements javax.accessibility.Accessible)
          • org.geworkbench.util.OWFileChooser
        • javax.swing.JLabel (implements javax.accessibility.Accessible, javax.swing.SwingConstants)
          • javax.swing.tree.DefaultTreeCellRenderer (implements javax.swing.tree.TreeCellRenderer)
            • org.geworkbench.builtin.projects.TreeNodeRenderer
        • javax.swing.JPanel (implements javax.accessibility.Accessible)
          • org.geworkbench.util.AlgorithmSelectionPanel
          • org.geworkbench.builtin.projects.util.CaARRAYPanel (implements java.util.Observer, org.geworkbench.engine.config.VisualPlugin)
          • org.geworkbench.builtin.ClassificationRunnerPlugin (implements org.geworkbench.engine.config.VisualPlugin)
          • org.geworkbench.util.ColorScale
          • org.geworkbench.util.JAutoList
          • org.geworkbench.builtin.projects.util.MAGEPanel
          • org.geworkbench.builtin.projects.util.NCIPanel
          • org.geworkbench.bison.model.analysis.ParameterPanel
            • org.geworkbench.analysis.AbstractSaveableParameterPanel
              • org.geworkbench.algorithms.AbstractTrainingPanel (implements org.geworkbench.util.TrainingProgressListener)
          • org.geworkbench.util.sequences.SequenceViewWidget
            • org.geworkbench.util.promoter.SequencePatternDisplayPanel
          • org.geworkbench.util.sequences.SequenceViewWidgetPanel
        • org.geworkbench.util.visualproperties.JShapeButton
        • org.geworkbench.util.LED (implements java.lang.Runnable)
        • org.geworkbench.util.ProgressGraph
      • java.awt.Window (implements javax.accessibility.Accessible)
        • java.awt.Dialog
          • javax.swing.JDialog (implements javax.accessibility.Accessible, javax.swing.RootPaneContainer, javax.swing.WindowConstants)
            • org.geworkbench.builtin.projects.remoteresources.query.CaARRAYQueryPanel
            • org.geworkbench.engine.config.ConfigChooser
            • org.geworkbench.util.visualproperties.JShapeDialog
            • org.geworkbench.builtin.projects.LoadData
            • org.geworkbench.util.ProgressBar
            • org.geworkbench.util.ProgressBarT
            • org.geworkbench.builtin.projects.remoteresources.RemoteResourceDialog
            • org.geworkbench.engine.builder.VisualBuilder
            • org.geworkbench.util.visualproperties.VisualPropertiesDialog
        • java.awt.Frame (implements java.awt.MenuContainer)
          • javax.swing.JFrame (implements javax.accessibility.Accessible, javax.swing.RootPaneContainer, javax.swing.WindowConstants)
            • org.geworkbench.engine.config.GUIFramework
              • org.geworkbench.engine.skin.Skin
        • javax.swing.JWindow (implements javax.accessibility.Accessible, javax.swing.RootPaneContainer)
          • org.geworkbench.util.SplashBitmap
  • org.geworkbench.engine.ccm.ComponentConfigurationManager
  • org.geworkbench.engine.ccm.ComponentConfigurationManager2
  • org.geworkbench.engine.ccm.ComponentConfigurationManagerMenu (implements org.geworkbench.engine.config.MenuListener)
  • org.geworkbench.engine.ccm.ComponentConfigurationManagerWindow
  • org.geworkbench.engine.ccm.ComponentConfigurationManagerWindow2
  • org.geworkbench.engine.config.ComponentInterface
  • org.geworkbench.engine.config.ComponentMetadata
  • org.geworkbench.engine.management.ComponentRegistry
  • org.geworkbench.engine.management.ComponentResource
  • org.geworkbench.engine.config.ConfigWriter
  • org.geworkbench.util.CorrelationDistance (implements org.geworkbench.util.Distance)
  • org.geworkbench.bison.datastructure.biocollections.microarrays.CSAffyMicroarraySet
  • org.geworkbench.bison.annotation.CSAnnotationContext<T> (implements org.geworkbench.bison.annotation.DSAnnotationContext<T>, java.io.Serializable)
  • org.geworkbench.bison.annotation.CSAnnotationContextManager (implements org.geworkbench.bison.annotation.DSAnnotationContextManager)
  • org.geworkbench.bison.annotation.CSAnnotationContextManager.SerializableContexts (implements java.io.Serializable)
  • org.geworkbench.bison.annotation.CSAnnotationRegistry (implements org.geworkbench.bison.annotation.DSAnnotationRegistry)
  • org.geworkbench.bison.annotation.CSAnnotationType<T> (implements org.geworkbench.bison.annotation.DSAnnotationType<T>)
  • org.geworkbench.bison.util.CSAnnotLabel (implements org.geworkbench.bison.util.DSAnnotLabel, java.io.Serializable)
  • org.geworkbench.bison.util.CSAnnotValue (implements org.geworkbench.bison.util.DSAnnotValue)
  • org.geworkbench.bison.datastructure.biocollections.views.CSDataSetView<Q> (implements org.geworkbench.bison.datastructure.biocollections.views.DSDataSetView<Q>, java.io.Serializable)
    • org.geworkbench.bison.datastructure.biocollections.views.CSMicroarraySetView<T,Q> (implements org.geworkbench.bison.datastructure.biocollections.views.DSMicroarraySetView<T,Q>, java.io.Serializable)
  • org.geworkbench.bison.datastructure.properties.CSDescribable (implements org.geworkbench.bison.datastructure.properties.DSDescribable, java.io.Serializable)
  • org.geworkbench.bison.datastructure.properties.CSExpressionStats
  • org.geworkbench.bison.datastructure.properties.CSExtendable (implements org.geworkbench.bison.datastructure.properties.DSExtendable, java.io.Serializable)
  • org.geworkbench.bison.datastructure.bioobjects.markers.CSGeneMarker (implements org.geworkbench.bison.datastructure.bioobjects.markers.DSGeneMarker, java.io.Serializable)
    • org.geworkbench.bison.datastructure.bioobjects.markers.CSExpressionMarker (implements org.geworkbench.bison.datastructure.bioobjects.markers.DSRangeMarker, java.io.Serializable)
    • org.geworkbench.bison.datastructure.bioobjects.markers.genotype.CSGenotypeMarker (implements org.geworkbench.bison.datastructure.bioobjects.markers.DSRangeMarker, java.io.Serializable)
    • org.geworkbench.bison.datastructure.bioobjects.markers.SequenceMarker (implements java.io.Serializable)
  • org.geworkbench.bison.datastructure.biocollections.microarrays.CSGenotypeMicroarraySet
  • org.geworkbench.bison.util.CSMarkerManager
  • org.geworkbench.bison.datastructure.bioobjects.microarray.CSMarkerValue (implements org.geworkbench.bison.datastructure.bioobjects.microarray.DSMutableMarkerValue)
    • org.geworkbench.bison.datastructure.bioobjects.microarray.CSExpressionMarkerValue (implements org.geworkbench.bison.datastructure.bioobjects.microarray.DSAffyMarkerValue, java.io.Serializable)
      • org.geworkbench.bison.datastructure.bioobjects.microarray.CSAffyMarkerValue (implements org.geworkbench.bison.datastructure.bioobjects.microarray.DSAffyMarkerValue, java.io.Serializable)
    • org.geworkbench.bison.datastructure.bioobjects.microarray.CSGenepixMarkerValue (implements org.geworkbench.bison.datastructure.bioobjects.microarray.DSGenepixMarkerValue, java.io.Serializable)
    • org.geworkbench.bison.datastructure.bioobjects.microarray.CSGenotypicMarkerValue (implements org.geworkbench.bison.datastructure.bioobjects.microarray.DSGenotypicMarkerValue, java.io.Serializable)
  • org.geworkbench.bison.datastructure.complex.pattern.CSMatchedPattern<T,R> (implements org.geworkbench.bison.datastructure.complex.pattern.DSMatchedPattern<T,R>)
    • org.geworkbench.util.associationdiscovery.cluster.CSMatchedMatrixPattern (implements org.geworkbench.bison.datastructure.complex.pattern.DSMatchedPattern<T,R>)
    • org.geworkbench.util.patterns.CSMatchedSeqPattern (implements org.geworkbench.bison.datastructure.complex.pattern.sequence.DSMatchedSeqPattern, org.geworkbench.bison.datastructure.complex.pattern.DSPattern<T,R>)
  • org.geworkbench.util.associationdiscovery.cluster.CSMatrixPattern (implements org.geworkbench.util.associationdiscovery.cluster.DSMatrixPattern)
  • org.geworkbench.bison.datastructure.complex.pattern.matrix.CSMatrixReduceExperiment (implements org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceExperiment)
  • org.geworkbench.bison.datastructure.bioobjects.microarray.CSMicroarray (implements org.geworkbench.bison.datastructure.bioobjects.microarray.DSMicroarray, java.io.Serializable)
  • org.geworkbench.bison.datastructure.complex.pattern.CSPatternMatch<T,R> (implements org.geworkbench.bison.datastructure.complex.pattern.DSPatternMatch<T,R>)
    • org.geworkbench.bison.datastructure.complex.pattern.matrix.CSPSAMMatch<T,R> (implements org.geworkbench.bison.datastructure.bioobjects.DSBioObject)
    • org.geworkbench.bison.datastructure.complex.pattern.sequence.CSSeqPatternMatch (implements org.geworkbench.bison.datastructure.complex.pattern.sequence.DSSeqPatternMatch)
  • org.geworkbench.bison.datastructure.complex.pattern.matrix.CSPositionSpecificAffinityMatrix (implements org.geworkbench.bison.datastructure.complex.pattern.matrix.DSPositionSpecificAffintyMatrix)
  • org.geworkbench.bison.datastructure.complex.pattern.matrix.CSPValued (implements org.geworkbench.bison.util.DSPValue)
  • org.geworkbench.bison.datastructure.complex.pattern.sequence.CSSeqPattern (implements org.geworkbench.bison.datastructure.complex.pattern.DSPattern<T,R>)
  • org.geworkbench.bison.datastructure.complex.pattern.sequence.CSSeqRegistration (implements org.geworkbench.bison.util.DSPValue)
    • org.geworkbench.bison.datastructure.complex.pattern.matrix.CSPSAMRegistration
    • org.geworkbench.bison.datastructure.complex.pattern.sequence.CSSeqCmplxRegistration
  • org.geworkbench.bison.datastructure.bioobjects.sequence.CSSequence (implements org.geworkbench.bison.datastructure.bioobjects.sequence.DSSequence, java.io.Serializable)
  • org.geworkbench.bison.datastructure.properties.CSUnigene (implements org.geworkbench.bison.datastructure.properties.DSUnigene, java.io.Serializable)
  • org.geworkbench.util.Cursor
  • org.geworkbench.bison.parsers.DataParseContext (implements java.io.Serializable)
  • org.geworkbench.builtin.projects.DataSetSaveNode (implements java.io.Serializable)
  • org.geworkbench.util.Debug
  • javax.swing.DefaultBoundedRangeModel (implements javax.swing.BoundedRangeModel, java.io.Serializable)
    • org.geworkbench.util.ProgressBar.IncrementModel
    • org.geworkbench.util.ProgressBarT.IncrementModel
  • org.geworkbench.bison.util.colorcontext.DefaultColorContext (implements org.geworkbench.bison.util.colorcontext.ColorContext)
  • org.geworkbench.builtin.projects.DefaultIconAssignments
  • org.geworkbench.bison.util.DefaultIdentifiable (implements java.io.Serializable)
  • javax.swing.tree.DefaultMutableTreeNode (implements java.lang.Cloneable, javax.swing.tree.MutableTreeNode, java.io.Serializable)
    • org.geworkbench.builtin.projects.ProjectTreeNode (implements java.io.Serializable)
      • org.geworkbench.builtin.projects.DataSetNode
      • org.geworkbench.builtin.projects.DataSetSubNode
        • org.geworkbench.builtin.projects.ImageNode
      • org.geworkbench.builtin.projects.MicroarraySetNode
      • org.geworkbench.builtin.projects.PendingTreeNode (implements java.io.Serializable)
      • org.geworkbench.builtin.projects.ProjectNode (implements java.io.Serializable)
  • org.geworkbench.engine.ccm.DependencyManager
  • org.geworkbench.util.promoter.pattern.Display
  • org.geworkbench.util.pathwaydecoder.mutualinformation.Edge (implements java.io.Serializable)
  • org.geworkbench.util.pathwaydecoder.mutualinformation.EdgeList (implements java.io.Serializable)
  • org.geworkbench.util.network.EdgeMatrix
  • org.geworkbench.util.network.EdgeMatrix.MatrixCell
  • org.geworkbench.engine.EngineIcons
  • org.geworkbench.util.EuclideanDistance (implements org.geworkbench.util.Distance)
  • org.geworkbench.engine.config.events.Event
    • org.geworkbench.events.AdjacencyMatrixEvent
    • org.geworkbench.events.AnalysisInvokedEvent
    • org.geworkbench.events.AnnotationAnalysisEvent
    • org.geworkbench.events.AnnotationsEvent
    • org.geworkbench.events.AssociationPanelEvent
    • org.geworkbench.events.CaArrayEvent
    • org.geworkbench.events.CaArrayQueryEvent
    • org.geworkbench.events.CaArrayQueryResultEvent
    • org.geworkbench.events.CaArrayRequestEvent
    • org.geworkbench.events.CaArrayRequestHybridizationListEvent
    • org.geworkbench.events.CaArrayReturnHybridizationListEvent
    • org.geworkbench.events.CaArraySuccessEvent
    • org.geworkbench.events.CleanDataEvent
    • org.geworkbench.events.ClusterEvent
    • org.geworkbench.events.CommentsEvent
    • org.geworkbench.events.CommentsEventOld
    • org.geworkbench.events.ComponentConfigurationManagerUpdateEvent
    • org.geworkbench.events.ComponentDockingEvent
    • org.geworkbench.events.DirtyDataEvent
    • org.geworkbench.events.DiscoverEvent
    • org.geworkbench.events.FilteringEvent
    • org.geworkbench.events.GeneSelectorEvent
    • org.geworkbench.events.GeneTaggedEvent
    • org.geworkbench.events.HierClusterAnalysisEvent
    • org.geworkbench.events.HistoryEvent
    • org.geworkbench.events.ImageSnapshotEvent
    • org.geworkbench.events.MarkerPanelEvent
    • org.geworkbench.events.MarkerSelectedEvent
    • org.geworkbench.events.MicroarrayNameChangeEvent
    • org.geworkbench.events.ModuleDiscoveryEvent
    • org.geworkbench.events.MultipleMarkerEvent
    • org.geworkbench.events.NormalizationEvent
    • org.geworkbench.events.PendingNodeCancelledEvent
    • org.geworkbench.events.PendingNodeLoadedFromWorkspaceEvent
    • org.geworkbench.events.PhenotypePanelEvent
    • org.geworkbench.events.PhenotypeSelectedEvent
    • org.geworkbench.events.PhenotypeSelectorEvent<Q>
    • org.geworkbench.events.ProjectEvent
    • org.geworkbench.events.ProjectNodeAddedEvent
    • org.geworkbench.events.ProjectNodeCompletedEvent
    • org.geworkbench.events.ProjectNodePendingEvent
    • org.geworkbench.events.ProjectNodePostCompletedEvent
    • org.geworkbench.events.ProjectNodeRemovedEvent
    • org.geworkbench.events.ProjectNodeRenamedEvent
    • org.geworkbench.events.SequenceDiscoveryTableEvent
    • org.geworkbench.events.SequencePanelEvent
    • org.geworkbench.events.SingleMarkerEvent
    • org.geworkbench.events.SingleMicroarrayEvent
    • org.geworkbench.events.SingleValueEditEvent
    • org.geworkbench.events.SOMClusterAnalysisEvent
    • org.geworkbench.events.StructureAnalysisEvent
    • org.geworkbench.events.SubpanelChangedEvent<T>
    • org.geworkbench.events.SyntenyEvent
    • org.geworkbench.events.TableChangeEvent
  • java.util.EventObject (implements java.io.Serializable)
    • org.geworkbench.bison.algorithm.AlgorithmEvent
    • org.geworkbench.events.HierClusterModelEvent
    • org.geworkbench.events.LoginPanelModelEvent
    • org.geworkbench.events.MicroarraySetViewEvent<T,Q>
    • org.geworkbench.events.SOMClusterModelEvent
  • org.geworkbench.engine.config.events.EventSource
  • org.geworkbench.builtin.projects.experimentinformation.ExperimentInformationPanel (implements org.geworkbench.engine.config.VisualPlugin)
  • org.geworkbench.bison.util.colorcontext.ExpressionColorContext (implements org.geworkbench.bison.util.colorcontext.ColorContext)
  • org.geworkbench.bison.util.colorcontext.ExpressionPValueColorContext (implements org.geworkbench.bison.util.colorcontext.ColorContext, java.io.Serializable)
  • org.geworkbench.util.FastMatrixModel
  • org.geworkbench.engine.preferences.Field (implements java.lang.Cloneable, java.io.Serializable)
    • org.geworkbench.engine.preferences.ChoiceField
    • org.geworkbench.engine.preferences.DoubleField
    • org.geworkbench.engine.preferences.FileField
    • org.geworkbench.engine.preferences.TextField
  • javax.swing.filechooser.FileFilter
    • org.geworkbench.components.parsers.ExampleFileFilter
    • org.geworkbench.bison.datastructure.bioobjects.markers.annotationparser.ExampleFilter
    • org.geworkbench.components.parsers.patterns.PatternFileFormat.PatternFilter
    • org.geworkbench.components.parsers.sequences.SequenceFileFormat.FASTAFilter
  • org.geworkbench.components.parsers.FileFormat
    • org.geworkbench.components.parsers.microarray.DataSetFileFormat
      • org.geworkbench.components.parsers.AffyFileFormat
      • org.geworkbench.components.parsers.CELFileFormat
      • org.geworkbench.components.parsers.ExpressionFileFormat
      • org.geworkbench.components.parsers.GenePixFileFormat
      • org.geworkbench.components.parsers.MageTabFileFormat
      • org.geworkbench.components.parsers.patterns.PatternFileFormat
      • org.geworkbench.components.parsers.PDBFileFormat
      • org.geworkbench.components.parsers.sequences.SequenceFileFormat
      • org.geworkbench.components.parsers.SOFTFileFormat
      • org.geworkbench.components.parsers.TabDelimitedDataMatrixFileFormat
  • org.geworkbench.builtin.projects.FileOpenHandler
  • org.geworkbench.util.FilePathnameUtils
  • org.geworkbench.bison.util.FileUtil
  • org.geworkbench.util.patterns.FlexiblePattern.TwoLocus
  • org.geworkbench.util.function.FunctionBase (implements org.geworkbench.util.function.IFunction)
    • org.geworkbench.util.function.UniformFunction
  • org.geworkbench.util.function.FunctionIntegrator
  • org.geworkbench.util.function.functionParameters.FunctionParameters
  • org.geworkbench.engine.config.rules.GeawConfigObject
  • org.geworkbench.util.annotation.Gene
  • org.geworkbench.util.sequences.GeneChromosomeMatcher
  • org.geworkbench.util.network.GeneNetworkEdgeImpl (implements java.lang.Comparable<T>, org.geworkbench.util.network.GeneNetworkEdge, java.io.Serializable)
  • org.geworkbench.bison.datastructure.bioobjects.markers.goterms.GeneOntologyTree
  • org.geworkbench.bison.datastructure.bioobjects.markers.annotationparser.GeneOntologyUtil
  • org.geworkbench.bison.parsers.GenepixParseContext (implements java.io.Serializable)
  • org.geworkbench.bison.parsers.GenePixParser
  • org.geworkbench.bison.datastructure.complex.pattern.sequence.GenomeAnnotation
  • org.geworkbench.bison.datastructure.bioobjects.markers.genotype.GenotypeColorContext (implements org.geworkbench.bison.util.colorcontext.ColorContext)
  • org.geworkbench.components.parsers.GeoSeriesMatrixParser
  • org.geworkbench.builtin.projects.remoteresources.query.GeWorkbenchCaARRAYAdaptor
  • org.geworkbench.engine.preferences.GlobalPreferences
  • org.geworkbench.bison.datastructure.bioobjects.markers.goterms.GOTerm
  • org.geworkbench.engine.config.rules.GUIWindowObject
  • org.geworkbench.bison.util.HashMatrix
  • org.geworkbench.builtin.projects.history.HistoryPanel (implements org.geworkbench.engine.config.VisualPlugin)
  • org.geworkbench.builtin.projects.Icons
  • org.geworkbench.engine.config.IdentifiableImpl (implements org.geworkbench.bison.datastructure.properties.DSIdentifiable)
    • org.geworkbench.engine.config.PluginClass
    • org.geworkbench.engine.config.PluginDescriptor (implements java.lang.Comparable<T>)
  • org.geworkbench.util.IndexSortComparator (implements java.util.Comparator<T>)
  • java.io.InputStream (implements java.io.Closeable)
    • java.io.ObjectInputStream (implements java.io.ObjectInput, java.io.ObjectStreamConstants)
      • org.geworkbench.engine.management.ComponentObjectInputStream
  • javax.swing.InputVerifier
    • org.geworkbench.util.RegularExpressionVerifier
  • org.geworkbench.util.network.InteractionDetail (implements java.io.Serializable)
  • org.geworkbench.algorithms.KFoldCrossValidation
  • org.geworkbench.algorithms.KFoldCrossValidation.CrossValidationData
  • org.geworkbench.util.associationdiscovery.statistics.KProbabilityDensity
  • org.geworkbench.engine.config.events.ListenerRegistryImpl (implements org.geworkbench.engine.config.events.ListenerRegistry)
  • org.geworkbench.util.LogStats
  • org.geworkbench.bison.parsers.resources.MAGEResource
  • org.geworkbench.bison.parsers.resources.MAGEResource2
  • org.geworkbench.events.MarkerInfoPanelSelectedEvent
  • org.geworkbench.util.microarrayutils.MatrixCreater
  • org.geworkbench.util.MatrixModel
    • org.geworkbench.util.MatrixModel.Gene
    • org.geworkbench.util.MatrixModel.Microarray
  • org.geworkbench.bison.datastructure.biocollections.medusa.MedusaCommand (implements java.io.Serializable)
  • org.geworkbench.bison.datastructure.biocollections.medusa.MedusaData (implements java.io.Serializable)
  • org.geworkbench.engine.config.MenuItemInfo
  • org.geworkbench.util.microarrayutils.MicroarrayViewEventBase (implements org.geworkbench.engine.config.VisualPlugin)
  • org.geworkbench.util.microarrayutils.MicroarrayVisualizer
  • org.geworkbench.util.pathwaydecoder.mutualinformation.MindyData (implements java.io.Serializable)
  • org.geworkbench.util.pathwaydecoder.mutualinformation.MindyGeneMarker (implements java.io.Serializable)
  • org.geworkbench.util.pathwaydecoder.mutualinformation.MindyResultRow (implements java.io.Serializable)
  • org.geworkbench.util.pathwaydecoder.mutualinformation.ModulatorInfo (implements java.io.Serializable)
  • org.geworkbench.util.pathwaydecoder.mutualinformation.ModulatorStatistics (implements java.io.Serializable)
  • org.geworkbench.util.pathwaydecoder.mutualinformation.MutualInformation
  • org.geworkbench.util.pathwaydecoder.mutualinformation.MutualInformationLibrary
  • org.geworkbench.bison.parsers.NCIParseContext (implements java.io.Serializable)
  • org.geworkbench.util.pathwaydecoder.mutualinformation.NetBoostAnalysisData (implements java.io.Serializable)
  • org.geworkbench.util.pathwaydecoder.mutualinformation.NetBoostData (implements java.io.Serializable)
  • org.geworkbench.bison.util.Normal (implements java.io.Serializable)
  • org.geworkbench.engine.management.Overflow (implements org.geworkbench.engine.management.SynchModel)
  • org.geworkbench.util.visualproperties.PanelVisualProperties
  • org.geworkbench.util.visualproperties.PanelVisualPropertiesManager
  • org.geworkbench.util.pathwaydecoder.mutualinformation.Parameter (implements java.io.Serializable)
  • org.geworkbench.events.listeners.ParameterActionListener (implements java.awt.event.ActionListener, javax.swing.event.ChangeListener, java.awt.event.FocusListener, javax.swing.event.ListDataListener, java.awt.event.MouseListener, java.beans.PropertyChangeListener)
  • org.geworkbench.analysis.ParameterKey (implements java.io.Serializable)
  • org.geworkbench.bison.datastructure.complex.pattern.Parameters (implements java.io.Serializable)
  • org.geworkbench.bison.model.analysis.ParamValidationResults
  • antlr.Parser
    • antlr.LLkParser
      • org.geworkbench.engine.cascript.CASParser (implements org.geworkbench.engine.cascript.CAStokensTokenTypes)
  • org.geworkbench.util.promoter.pattern.PatternDisplay<T,R>
  • org.geworkbench.util.patterns.PatternLocations (implements java.lang.Comparable<T>)
  • org.geworkbench.util.patterns.PatternOfflet
  • org.geworkbench.util.patterns.PatternOperations
  • org.geworkbench.util.patterns.PatternSequenceDisplayUtil
  • org.geworkbench.util.patterns.PatternSorter (implements java.util.Comparator<T>)
  • org.geworkbench.engine.config.PluginClassRegistry
  • org.geworkbench.engine.ccm.PluginComponent
  • org.geworkbench.engine.config.rules.PluginObject
  • org.geworkbench.engine.config.PluginRegistry
  • org.geworkbench.engine.preferences.Preferences (implements java.io.Serializable)
  • org.geworkbench.engine.preferences.PreferencesDialog
  • org.geworkbench.engine.preferences.PreferencesDialog.FileFieldComponent
  • org.geworkbench.engine.preferences.PreferencesManager
  • org.geworkbench.engine.config.PreferencesMenu (implements org.geworkbench.engine.config.MenuListener)
  • org.geworkbench.util.PrintUtils (implements java.awt.print.Pageable, java.awt.print.Printable)
  • org.geworkbench.events.ProgressBarEvent
  • org.geworkbench.events.ProgressChangeEvent
    • org.geworkbench.events.HierarchicalProgressEvent
  • org.geworkbench.builtin.projects.ProjectNode.JMAProject (implements java.io.Serializable)
  • org.geworkbench.builtin.projects.ProjectPanel (implements org.geworkbench.engine.config.MenuListener, org.geworkbench.engine.config.VisualPlugin)
  • org.geworkbench.builtin.projects.ProjectSelection
  • org.geworkbench.engine.properties.PropertiesManager
  • org.geworkbench.util.PropertiesMonitor
  • java.beans.PropertyChangeSupport (implements java.io.Serializable)
    • org.geworkbench.util.threading.SwingPropertyChangeSupport
  • org.geworkbench.util.QSort
  • org.geworkbench.bison.util.RandomNumberGenerator
  • org.geworkbench.util.RandomSequenceGenerator
  • org.geworkbench.bison.util.Range (implements java.io.Serializable)
  • org.geworkbench.util.pathwaydecoder.RankSorter
  • org.geworkbench.builtin.projects.remoteresources.RemoteResource
  • org.geworkbench.builtin.projects.remoteresources.RemoteResourceManager
  • org.apache.commons.digester.Rule
    • org.apache.commons.digester.ObjectCreateRule
      • org.geworkbench.engine.config.rules.GeawConfigRule
      • org.geworkbench.engine.config.PluginClassRule
      • org.geworkbench.engine.config.rules.PluginRule
  • org.geworkbench.components.parsers.SampleFileParser
  • org.geworkbench.builtin.projects.SaveFileFilterFactory
  • org.geworkbench.util.SaveImage
  • org.geworkbench.builtin.projects.SaveTree (implements java.io.Serializable)
  • org.geworkbench.builtin.projects.remoteresources.query.SearchCriteria
  • org.geworkbench.util.patterns.SequencePatternUtils
  • org.geworkbench.bison.util.SequenceUtils
  • org.geworkbench.engine.skin.ShortCutMenu (implements org.geworkbench.engine.config.MenuListener)
  • org.geworkbench.components.parsers.SOFTSeriesParser
  • org.geworkbench.util.SpearmanRankDistance (implements org.geworkbench.util.Distance)
  • org.geworkbench.events.StatusBarEvent
  • org.geworkbench.bison.util.StringUtils
  • org.geworkbench.engine.management.SwingModel (implements org.geworkbench.engine.management.SynchModel)
  • org.geworkbench.util.SwingWorker
    • org.geworkbench.util.BusySwingWorker
  • org.geworkbench.util.threading.SwingWorker<T,V> (implements java.util.concurrent.Future<V>, java.lang.Runnable)
  • org.geworkbench.engine.management.Synchronous (implements org.geworkbench.engine.management.SynchModel)
  • org.geworkbench.util.pathwaydecoder.mutualinformation.TargetInfo (implements java.io.Serializable)
  • java.lang.Thread (implements java.lang.Runnable)
    • org.geworkbench.analysis.HighlightCurrentParameterThread
  • java.lang.Throwable (implements java.io.Serializable)
    • java.lang.Exception
      • org.geworkbench.util.BaseException
        • org.geworkbench.engine.config.events.AppEventListenerException
        • org.geworkbench.engine.config.rules.DynamicMenuItemException
        • org.geworkbench.components.parsers.InputFileFormatException
        • org.geworkbench.engine.config.events.ListenerEventMismatchException
        • org.geworkbench.engine.config.rules.MalformedMenuItemException
        • org.geworkbench.engine.config.rules.NotEventSourceException
        • org.geworkbench.engine.config.rules.NotMenuListenerException
        • org.geworkbench.engine.config.rules.NotVisualPluginException
      • org.geworkbench.util.ClassifierException
      • java.lang.RuntimeException
        • org.geworkbench.util.BaseRuntimeException
        • org.geworkbench.engine.cascript.CasException
        • org.geworkbench.engine.management.EventException
        • org.geworkbench.util.patterns.PatternFetchException
      • org.geworkbench.engine.preferences.ValidationException
  • antlr.TreeParser
    • org.geworkbench.engine.cascript.CASSemantics (implements org.geworkbench.engine.cascript.CASSemanticsTokenTypes)
    • org.geworkbench.engine.cascript.CASWalker (implements org.geworkbench.engine.cascript.CASWalkerTokenTypes)
  • org.geworkbench.engine.config.UIController
  • org.geworkbench.engine.config.UILauncher
  • org.geworkbench.util.Util
  • org.geworkbench.bison.testing.UtilsForTests
  • org.geworkbench.util.ValidationUtils
  • org.geworkbench.engine.config.VisualMenu (implements org.geworkbench.engine.config.MenuListener)
  • org.geworkbench.builtin.projects.WorkspaceHandler

Interface Hierarchy

• org.geworkbench.engine.config.events.AppEventListener
  • org.geworkbench.events.listeners.ComponentDockingListener
• org.geworkbench.engine.cascript.CASSemanticsTokenTypes
• org.geworkbench.engine.cascript.CAStokensTokenTypes
• org.geworkbench.engine.cascript.CASWalkerTokenTypes
• java.lang.Cloneable
  • org.geworkbench.bison.datastructure.bioobjects.sequence.DSAlignmentResultSet (also extends org.geworkbench.bison.datastructure.biocollections.DSAncillaryDataSet<T>, java.util.RandomAccess, java.io.Serializable)
  • org.geworkbench.bison.annotation.DSAnnotationContext<T> (also extends org.geworkbench.bison.annotation.DSAnnotationSource<T>)
  • org.geworkbench.bison.datastructure.bioobjects.markers.DSGeneMarker (also extends java.lang.Comparable<T>, org.geworkbench.bison.datastructure.properties.DSSequential, java.io.Serializable)
  • org.geworkbench.bison.datastructure.biocollections.sequences.DSSequenceSet<T> (also extends org.geworkbench.bison.datastructure.biocollections.DSCollection<T>, org.geworkbench.bison.datastructure.biocollections.DSDataSet<T>, java.util.RandomAccess, java.io.Serializable)
• org.geworkbench.engine.config.Closable
• java.lang.Comparable<T>
  • org.geworkbench.bison.datastructure.bioobjects.markers.DSGeneMarker (also extends java.lang.Cloneable, org.geworkbench.bison.datastructure.properties.DSSequential, java.io.Serializable)
  • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMarkerValue (also extends java.io.Serializable)
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAffyMarkerValue
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSGenepixMarkerValue
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSGenotypicMarkerValue
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMutableMarkerValue (also extends java.io.Serializable)
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAffyMarkerValue
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSGenepixMarkerValue
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSGenotypicMarkerValue
  • org.geworkbench.bison.model.clusters.HierCluster (also extends org.geworkbench.bison.model.clusters.Cluster)
• org.geworkbench.util.patterns.DataSource
  • org.geworkbench.util.patterns.SequentialPatternSource
• org.geworkbench.util.Distance
• org.geworkbench.util.DoubleIterator
• org.geworkbench.bison.datastructure.properties.DSAnnotated
• org.geworkbench.bison.annotation.DSAnnotationContextManager
• org.geworkbench.bison.annotation.DSAnnotationRegistry
• org.geworkbench.bison.annotation.DSAnnotationSource<T>
  • org.geworkbench.bison.annotation.DSAnnotationContext<T> (also extends java.lang.Cloneable)
• org.geworkbench.bison.annotation.DSAnnotationType<T>
• org.geworkbench.bison.util.DSAnnotLabel
• org.geworkbench.bison.annotation.DSCriterion<T>
• org.geworkbench.bison.datastructure.properties.DSDescribable
  • org.geworkbench.bison.model.analysis.Analysis (also extends org.geworkbench.bison.datastructure.properties.DSIdentifiable)
    • org.geworkbench.bison.model.analysis.ClusteringAnalysis
    • org.geworkbench.bison.model.analysis.NormalizingAnalysis
    • org.geworkbench.bison.model.analysis.ProteinAnnotationAnalysis
    • org.geworkbench.bison.model.analysis.ProteinDatabaseAnalysis
    • org.geworkbench.bison.model.analysis.ProteinSequenceAnalysis
    • org.geworkbench.bison.model.analysis.ProteinStructureAnalysis
  • org.geworkbench.bison.model.analysis.ClusteringAnalysis
  • org.geworkbench.bison.datastructure.bioobjects.sequence.DSAlignmentResultSet (also extends java.lang.Cloneable, org.geworkbench.bison.datastructure.biocollections.DSAncillaryDataSet<T>, java.util.RandomAccess, java.io.Serializable)
  • org.geworkbench.bison.datastructure.biocollections.DSAncillaryDataSet<T>
    • org.geworkbench.bison.datastructure.bioobjects.sequence.DSAlignmentResultSet (also extends java.lang.Cloneable, java.util.RandomAccess, java.io.Serializable)
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
    • org.geworkbench.bison.model.clusters.DSClusterDataSet
      • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
      • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
    • org.geworkbench.bison.datastructure.biocollections.gsea.DSGSEAResultDataSet
    • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMasterRagulatorResultSet<T>
    • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceSet
    • org.geworkbench.bison.datastructure.biocollections.pca.DSPCADataSet
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSProbeIntensityArray
    • org.geworkbench.bison.datastructure.bioobjects.structure.DSProteinStructure
    • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtAnnotResultSet
    • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtDBResultSet
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSSignificanceResultSet<T>
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
    • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
  • org.geworkbench.bison.datastructure.complex.panels.DSAnnotatedPanel<T,U>
  • org.geworkbench.bison.datastructure.complex.panels.DSAnnotPanel<T,U>
  • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
  • org.geworkbench.bison.datastructure.bioobjects.DSBioObject (also extends org.geworkbench.bison.datastructure.properties.DSExtendable, org.geworkbench.bison.datastructure.properties.DSHasActivation, org.geworkbench.bison.datastructure.properties.DSIdentifiable, org.geworkbench.bison.datastructure.properties.DSNamed, org.geworkbench.bison.datastructure.properties.DSSequential, java.io.Serializable)
    • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceExperiment (also extends org.geworkbench.bison.datastructure.bioobjects.DSPValued)
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMicroarray
    • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSPositionSpecificAffintyMatrix (also extends org.geworkbench.bison.datastructure.bioobjects.DSPValued)
    • org.geworkbench.bison.datastructure.bioobjects.sequence.DSSequence
  • org.geworkbench.bison.model.clusters.DSClusterDataSet
    • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
    • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
  • org.geworkbench.bison.datastructure.biocollections.DSDataSet<T> (also extends org.geworkbench.bison.datastructure.properties.DSExtendable, org.geworkbench.bison.datastructure.complex.panels.DSItemList<T>, org.geworkbench.bison.datastructure.properties.DSNamed, java.io.Serializable)
    • org.geworkbench.bison.datastructure.bioobjects.sequence.DSAlignmentResultSet (also extends java.lang.Cloneable, org.geworkbench.bison.datastructure.biocollections.DSAncillaryDataSet<T>, java.util.RandomAccess, java.io.Serializable)
    • org.geworkbench.bison.datastructure.biocollections.DSAncillaryDataSet<T>
      • org.geworkbench.bison.datastructure.bioobjects.sequence.DSAlignmentResultSet (also extends java.lang.Cloneable, java.util.RandomAccess, java.io.Serializable)
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
      • org.geworkbench.bison.model.clusters.DSClusterDataSet
        • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
        • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
      • org.geworkbench.bison.datastructure.biocollections.gsea.DSGSEAResultDataSet
      • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMasterRagulatorResultSet<T>
      • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceSet
      • org.geworkbench.bison.datastructure.biocollections.pca.DSPCADataSet
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSProbeIntensityArray
      • org.geworkbench.bison.datastructure.bioobjects.structure.DSProteinStructure
      • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtAnnotResultSet
      • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtDBResultSet
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSSignificanceResultSet<T>
        • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
        • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
      • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
    • org.geworkbench.bison.model.clusters.DSClusterDataSet
      • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
      • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
    • org.geworkbench.bison.datastructure.biocollections.gsea.DSGSEAResultDataSet
    • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMasterRagulatorResultSet<T>
    • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceSet
    • org.geworkbench.bison.datastructure.biocollections.microarrays.DSMicroarraySet<T> (also extends org.geworkbench.bison.datastructure.biocollections.DSMatrixDataSet<T>)
    • org.geworkbench.bison.datastructure.biocollections.pca.DSPCADataSet
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSProbeIntensityArray
    • org.geworkbench.bison.datastructure.bioobjects.structure.DSProteinStructure
    • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtAnnotResultSet
    • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtDBResultSet
    • org.geworkbench.bison.datastructure.biocollections.sequences.DSSequenceSet<T> (also extends java.lang.Cloneable, org.geworkbench.bison.datastructure.biocollections.DSCollection<T>, java.util.RandomAccess, java.io.Serializable)
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSSignificanceResultSet<T>
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
    • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
  • org.geworkbench.bison.datastructure.biocollections.gsea.DSGSEAResultDataSet
  • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
  • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMasterRagulatorResultSet<T>
  • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceExperiment (also extends org.geworkbench.bison.datastructure.bioobjects.DSBioObject, org.geworkbench.bison.datastructure.bioobjects.DSPValued)
  • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceSet
  • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMicroarray
  • org.geworkbench.bison.datastructure.biocollections.microarrays.DSMicroarraySet<T> (also extends org.geworkbench.bison.datastructure.biocollections.DSDataSet<T>, org.geworkbench.bison.datastructure.biocollections.DSMatrixDataSet<T>)
  • org.geworkbench.bison.datastructure.complex.panels.DSPanel<T> (also extends org.geworkbench.bison.datastructure.properties.DSIdentifiable, org.geworkbench.bison.datastructure.complex.panels.DSItemList<T>, org.geworkbench.bison.datastructure.properties.DSNamed, org.geworkbench.bison.datastructure.properties.DSSequential, java.io.Serializable)
    • org.geworkbench.bison.datastructure.complex.panels.DSAnnotatedPanel<T,U>
    • org.geworkbench.bison.datastructure.complex.panels.DSAnnotPanel<T,U>
  • org.geworkbench.bison.datastructure.biocollections.pca.DSPCADataSet
  • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSPositionSpecificAffintyMatrix (also extends org.geworkbench.bison.datastructure.bioobjects.DSBioObject, org.geworkbench.bison.datastructure.bioobjects.DSPValued)
  • org.geworkbench.bison.datastructure.bioobjects.microarray.DSProbeIntensityArray
  • org.geworkbench.bison.datastructure.bioobjects.structure.DSProteinStructure
  • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtAnnotResultSet
  • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtDBResultSet
  • org.geworkbench.bison.datastructure.bioobjects.sequence.DSSequence
  • org.geworkbench.bison.datastructure.biocollections.sequences.DSSequenceSet<T> (also extends java.lang.Cloneable, org.geworkbench.bison.datastructure.biocollections.DSCollection<T>, org.geworkbench.bison.datastructure.biocollections.DSDataSet<T>, java.util.RandomAccess, java.io.Serializable)
  • org.geworkbench.bison.datastructure.bioobjects.microarray.DSSignificanceResultSet<T>
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
  • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
  • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
  • org.geworkbench.bison.model.analysis.NormalizingAnalysis
  • org.geworkbench.bison.model.analysis.ProteinAnnotationAnalysis
  • org.geworkbench.bison.model.analysis.ProteinDatabaseAnalysis
  • org.geworkbench.bison.model.analysis.ProteinSequenceAnalysis
  • org.geworkbench.bison.model.analysis.ProteinStructureAnalysis
• org.geworkbench.bison.algorithm.discovery.DSDiscoveryStatus
• org.geworkbench.bison.datastructure.properties.DSExtendable
  • org.geworkbench.bison.datastructure.bioobjects.sequence.DSAlignmentResultSet (also extends java.lang.Cloneable, org.geworkbench.bison.datastructure.biocollections.DSAncillaryDataSet<T>, java.util.RandomAccess, java.io.Serializable)
  • org.geworkbench.bison.datastructure.biocollections.DSAncillaryDataSet<T>
    • org.geworkbench.bison.datastructure.bioobjects.sequence.DSAlignmentResultSet (also extends java.lang.Cloneable, java.util.RandomAccess, java.io.Serializable)
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
    • org.geworkbench.bison.model.clusters.DSClusterDataSet
      • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
      • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
    • org.geworkbench.bison.datastructure.biocollections.gsea.DSGSEAResultDataSet
    • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMasterRagulatorResultSet<T>
    • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceSet
    • org.geworkbench.bison.datastructure.biocollections.pca.DSPCADataSet
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSProbeIntensityArray
    • org.geworkbench.bison.datastructure.bioobjects.structure.DSProteinStructure
    • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtAnnotResultSet
    • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtDBResultSet
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSSignificanceResultSet<T>
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
    • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
  • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
  • org.geworkbench.bison.datastructure.bioobjects.DSBioObject (also extends org.geworkbench.bison.datastructure.properties.DSDescribable, org.geworkbench.bison.datastructure.properties.DSHasActivation, org.geworkbench.bison.datastructure.properties.DSIdentifiable, org.geworkbench.bison.datastructure.properties.DSNamed, org.geworkbench.bison.datastructure.properties.DSSequential, java.io.Serializable)
    • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceExperiment (also extends org.geworkbench.bison.datastructure.bioobjects.DSPValued)
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMicroarray
    • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSPositionSpecificAffintyMatrix (also extends org.geworkbench.bison.datastructure.bioobjects.DSPValued)
    • org.geworkbench.bison.datastructure.bioobjects.sequence.DSSequence
  • org.geworkbench.bison.model.clusters.DSClusterDataSet
    • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
    • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
  • org.geworkbench.bison.datastructure.biocollections.DSDataSet<T> (also extends org.geworkbench.bison.datastructure.properties.DSDescribable, org.geworkbench.bison.datastructure.complex.panels.DSItemList<T>, org.geworkbench.bison.datastructure.properties.DSNamed, java.io.Serializable)
    • org.geworkbench.bison.datastructure.bioobjects.sequence.DSAlignmentResultSet (also extends java.lang.Cloneable, org.geworkbench.bison.datastructure.biocollections.DSAncillaryDataSet<T>, java.util.RandomAccess, java.io.Serializable)
    • org.geworkbench.bison.datastructure.biocollections.DSAncillaryDataSet<T>
      • org.geworkbench.bison.datastructure.bioobjects.sequence.DSAlignmentResultSet (also extends java.lang.Cloneable, java.util.RandomAccess, java.io.Serializable)
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
      • org.geworkbench.bison.model.clusters.DSClusterDataSet
        • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
        • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
      • org.geworkbench.bison.datastructure.biocollections.gsea.DSGSEAResultDataSet
      • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMasterRagulatorResultSet<T>
      • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceSet
      • org.geworkbench.bison.datastructure.biocollections.pca.DSPCADataSet
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSProbeIntensityArray
      • org.geworkbench.bison.datastructure.bioobjects.structure.DSProteinStructure
      • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtAnnotResultSet
      • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtDBResultSet
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSSignificanceResultSet<T>
        • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
        • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
      • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
    • org.geworkbench.bison.model.clusters.DSClusterDataSet
      • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
      • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
    • org.geworkbench.bison.datastructure.biocollections.gsea.DSGSEAResultDataSet
    • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMasterRagulatorResultSet<T>
    • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceSet
    • org.geworkbench.bison.datastructure.biocollections.microarrays.DSMicroarraySet<T> (also extends org.geworkbench.bison.datastructure.biocollections.DSMatrixDataSet<T>)
    • org.geworkbench.bison.datastructure.biocollections.pca.DSPCADataSet
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSProbeIntensityArray
    • org.geworkbench.bison.datastructure.bioobjects.structure.DSProteinStructure
    • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtAnnotResultSet
    • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtDBResultSet
    • org.geworkbench.bison.datastructure.biocollections.sequences.DSSequenceSet<T> (also extends java.lang.Cloneable, org.geworkbench.bison.datastructure.biocollections.DSCollection<T>, java.util.RandomAccess, java.io.Serializable)
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSSignificanceResultSet<T>
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
    • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
  • org.geworkbench.bison.datastructure.biocollections.gsea.DSGSEAResultDataSet
  • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
  • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMasterRagulatorResultSet<T>
  • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceExperiment (also extends org.geworkbench.bison.datastructure.bioobjects.DSBioObject, org.geworkbench.bison.datastructure.bioobjects.DSPValued)
  • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceSet
  • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMicroarray
  • org.geworkbench.bison.datastructure.biocollections.microarrays.DSMicroarraySet<T> (also extends org.geworkbench.bison.datastructure.biocollections.DSDataSet<T>, org.geworkbench.bison.datastructure.biocollections.DSMatrixDataSet<T>)
  • org.geworkbench.bison.datastructure.biocollections.pca.DSPCADataSet
  • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSPositionSpecificAffintyMatrix (also extends org.geworkbench.bison.datastructure.bioobjects.DSBioObject, org.geworkbench.bison.datastructure.bioobjects.DSPValued)
  • org.geworkbench.bison.datastructure.bioobjects.microarray.DSProbeIntensityArray
  • org.geworkbench.bison.datastructure.bioobjects.structure.DSProteinStructure
  • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtAnnotResultSet
  • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtDBResultSet
  • org.geworkbench.bison.datastructure.bioobjects.sequence.DSSequence
  • org.geworkbench.bison.datastructure.biocollections.sequences.DSSequenceSet<T> (also extends java.lang.Cloneable, org.geworkbench.bison.datastructure.biocollections.DSCollection<T>, org.geworkbench.bison.datastructure.biocollections.DSDataSet<T>, java.util.RandomAccess, java.io.Serializable)
  • org.geworkbench.bison.datastructure.bioobjects.microarray.DSSignificanceResultSet<T>
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
  • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
  • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
• org.geworkbench.bison.datastructure.properties.DSHasActivation
  • org.geworkbench.bison.datastructure.bioobjects.DSBioObject (also extends org.geworkbench.bison.datastructure.properties.DSDescribable, org.geworkbench.bison.datastructure.properties.DSExtendable, org.geworkbench.bison.datastructure.properties.DSIdentifiable, org.geworkbench.bison.datastructure.properties.DSNamed, org.geworkbench.bison.datastructure.properties.DSSequential, java.io.Serializable)
    • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceExperiment (also extends org.geworkbench.bison.datastructure.bioobjects.DSPValued)
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMicroarray
    • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSPositionSpecificAffintyMatrix (also extends org.geworkbench.bison.datastructure.bioobjects.DSPValued)
    • org.geworkbench.bison.datastructure.bioobjects.sequence.DSSequence
  • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceExperiment (also extends org.geworkbench.bison.datastructure.bioobjects.DSBioObject, org.geworkbench.bison.datastructure.bioobjects.DSPValued)
  • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMicroarray
  • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSPositionSpecificAffintyMatrix (also extends org.geworkbench.bison.datastructure.bioobjects.DSBioObject, org.geworkbench.bison.datastructure.bioobjects.DSPValued)
  • org.geworkbench.bison.datastructure.bioobjects.sequence.DSSequence
• org.geworkbench.bison.datastructure.properties.DSIdentifiable
  • org.geworkbench.bison.model.analysis.Analysis (also extends org.geworkbench.bison.datastructure.properties.DSDescribable)
    • org.geworkbench.bison.model.analysis.ClusteringAnalysis
    • org.geworkbench.bison.model.analysis.NormalizingAnalysis
    • org.geworkbench.bison.model.analysis.ProteinAnnotationAnalysis
    • org.geworkbench.bison.model.analysis.ProteinDatabaseAnalysis
    • org.geworkbench.bison.model.analysis.ProteinSequenceAnalysis
    • org.geworkbench.bison.model.analysis.ProteinStructureAnalysis
  • org.geworkbench.bison.model.clusters.Cluster (also extends java.util.Iterator<E>)
    • org.geworkbench.bison.model.clusters.HierCluster (also extends java.lang.Comparable<T>)
    • org.geworkbench.bison.model.clusters.SOMCluster
  • org.geworkbench.bison.model.analysis.ClusteringAnalysis
  • org.geworkbench.bison.datastructure.bioobjects.sequence.DSAlignmentResultSet (also extends java.lang.Cloneable, org.geworkbench.bison.datastructure.biocollections.DSAncillaryDataSet<T>, java.util.RandomAccess, java.io.Serializable)
  • org.geworkbench.bison.datastructure.biocollections.DSAncillaryDataSet<T>
    • org.geworkbench.bison.datastructure.bioobjects.sequence.DSAlignmentResultSet (also extends java.lang.Cloneable, java.util.RandomAccess, java.io.Serializable)
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
    • org.geworkbench.bison.model.clusters.DSClusterDataSet
      • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
      • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
    • org.geworkbench.bison.datastructure.biocollections.gsea.DSGSEAResultDataSet
    • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMasterRagulatorResultSet<T>
    • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceSet
    • org.geworkbench.bison.datastructure.biocollections.pca.DSPCADataSet
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSProbeIntensityArray
    • org.geworkbench.bison.datastructure.bioobjects.structure.DSProteinStructure
    • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtAnnotResultSet
    • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtDBResultSet
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSSignificanceResultSet<T>
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
    • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
  • org.geworkbench.bison.datastructure.complex.panels.DSAnnotatedPanel<T,U>
  • org.geworkbench.bison.datastructure.complex.panels.DSAnnotPanel<T,U>
  • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
  • org.geworkbench.bison.datastructure.bioobjects.DSBioObject (also extends org.geworkbench.bison.datastructure.properties.DSDescribable, org.geworkbench.bison.datastructure.properties.DSExtendable, org.geworkbench.bison.datastructure.properties.DSHasActivation, org.geworkbench.bison.datastructure.properties.DSNamed, org.geworkbench.bison.datastructure.properties.DSSequential, java.io.Serializable)
    • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceExperiment (also extends org.geworkbench.bison.datastructure.bioobjects.DSPValued)
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMicroarray
    • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSPositionSpecificAffintyMatrix (also extends org.geworkbench.bison.datastructure.bioobjects.DSPValued)
    • org.geworkbench.bison.datastructure.bioobjects.sequence.DSSequence
  • org.geworkbench.bison.model.clusters.DSClusterDataSet
    • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
    • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
  • org.geworkbench.bison.datastructure.biocollections.DSDataSet<T> (also extends org.geworkbench.bison.datastructure.properties.DSDescribable, org.geworkbench.bison.datastructure.properties.DSExtendable, org.geworkbench.bison.datastructure.complex.panels.DSItemList<T>, org.geworkbench.bison.datastructure.properties.DSNamed, java.io.Serializable)
    • org.geworkbench.bison.datastructure.bioobjects.sequence.DSAlignmentResultSet (also extends java.lang.Cloneable, org.geworkbench.bison.datastructure.biocollections.DSAncillaryDataSet<T>, java.util.RandomAccess, java.io.Serializable)
    • org.geworkbench.bison.datastructure.biocollections.DSAncillaryDataSet<T>
      • org.geworkbench.bison.datastructure.bioobjects.sequence.DSAlignmentResultSet (also extends java.lang.Cloneable, java.util.RandomAccess, java.io.Serializable)
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
      • org.geworkbench.bison.model.clusters.DSClusterDataSet
        • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
        • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
      • org.geworkbench.bison.datastructure.biocollections.gsea.DSGSEAResultDataSet
      • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMasterRagulatorResultSet<T>
      • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceSet
      • org.geworkbench.bison.datastructure.biocollections.pca.DSPCADataSet
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSProbeIntensityArray
      • org.geworkbench.bison.datastructure.bioobjects.structure.DSProteinStructure
      • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtAnnotResultSet
      • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtDBResultSet
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSSignificanceResultSet<T>
        • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
        • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
      • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
    • org.geworkbench.bison.model.clusters.DSClusterDataSet
      • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
      • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
    • org.geworkbench.bison.datastructure.biocollections.gsea.DSGSEAResultDataSet
    • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMasterRagulatorResultSet<T>
    • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceSet
    • org.geworkbench.bison.datastructure.biocollections.microarrays.DSMicroarraySet<T> (also extends org.geworkbench.bison.datastructure.biocollections.DSMatrixDataSet<T>)
    • org.geworkbench.bison.datastructure.biocollections.pca.DSPCADataSet
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSProbeIntensityArray
    • org.geworkbench.bison.datastructure.bioobjects.structure.DSProteinStructure
    • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtAnnotResultSet
    • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtDBResultSet
    • org.geworkbench.bison.datastructure.biocollections.sequences.DSSequenceSet<T> (also extends java.lang.Cloneable, org.geworkbench.bison.datastructure.biocollections.DSCollection<T>, java.util.RandomAccess, java.io.Serializable)
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSSignificanceResultSet<T>
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
    • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
  • org.geworkbench.bison.datastructure.biocollections.gsea.DSGSEAResultDataSet
  • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
  • org.geworkbench.bison.datastructure.complex.panels.DSItemList<T> (also extends java.util.List<E>)
    • org.geworkbench.bison.datastructure.bioobjects.sequence.DSAlignmentResultSet (also extends java.lang.Cloneable, org.geworkbench.bison.datastructure.biocollections.DSAncillaryDataSet<T>, java.util.RandomAccess, java.io.Serializable)
    • org.geworkbench.bison.datastructure.biocollections.DSAncillaryDataSet<T>
      • org.geworkbench.bison.datastructure.bioobjects.sequence.DSAlignmentResultSet (also extends java.lang.Cloneable, java.util.RandomAccess, java.io.Serializable)
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
      • org.geworkbench.bison.model.clusters.DSClusterDataSet
        • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
        • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
      • org.geworkbench.bison.datastructure.biocollections.gsea.DSGSEAResultDataSet
      • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMasterRagulatorResultSet<T>
      • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceSet
      • org.geworkbench.bison.datastructure.biocollections.pca.DSPCADataSet
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSProbeIntensityArray
      • org.geworkbench.bison.datastructure.bioobjects.structure.DSProteinStructure
      • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtAnnotResultSet
      • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtDBResultSet
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSSignificanceResultSet<T>
        • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
        • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
      • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
    • org.geworkbench.bison.datastructure.complex.panels.DSAnnotatedPanel<T,U>
    • org.geworkbench.bison.datastructure.complex.panels.DSAnnotPanel<T,U>
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
    • org.geworkbench.bison.model.clusters.DSClusterDataSet
      • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
      • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
    • org.geworkbench.bison.datastructure.biocollections.DSDataSet<T> (also extends org.geworkbench.bison.datastructure.properties.DSDescribable, org.geworkbench.bison.datastructure.properties.DSExtendable, org.geworkbench.bison.datastructure.properties.DSNamed, java.io.Serializable)
      • org.geworkbench.bison.datastructure.bioobjects.sequence.DSAlignmentResultSet (also extends java.lang.Cloneable, org.geworkbench.bison.datastructure.biocollections.DSAncillaryDataSet<T>, java.util.RandomAccess, java.io.Serializable)
      • org.geworkbench.bison.datastructure.biocollections.DSAncillaryDataSet<T>
        • org.geworkbench.bison.datastructure.bioobjects.sequence.DSAlignmentResultSet (also extends java.lang.Cloneable, java.util.RandomAccess, java.io.Serializable)
        • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
        • org.geworkbench.bison.model.clusters.DSClusterDataSet
          • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
          • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
        • org.geworkbench.bison.datastructure.biocollections.gsea.DSGSEAResultDataSet
        • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
        • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMasterRagulatorResultSet<T>
        • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceSet
        • org.geworkbench.bison.datastructure.biocollections.pca.DSPCADataSet
        • org.geworkbench.bison.datastructure.bioobjects.microarray.DSProbeIntensityArray
        • org.geworkbench.bison.datastructure.bioobjects.structure.DSProteinStructure
        • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtAnnotResultSet
        • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtDBResultSet
        • org.geworkbench.bison.datastructure.bioobjects.microarray.DSSignificanceResultSet<T>
          • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
          • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
        • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
        • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
      • org.geworkbench.bison.model.clusters.DSClusterDataSet
        • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
        • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
      • org.geworkbench.bison.datastructure.biocollections.gsea.DSGSEAResultDataSet
      • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMasterRagulatorResultSet<T>
      • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceSet
      • org.geworkbench.bison.datastructure.biocollections.microarrays.DSMicroarraySet<T> (also extends org.geworkbench.bison.datastructure.biocollections.DSMatrixDataSet<T>)
      • org.geworkbench.bison.datastructure.biocollections.pca.DSPCADataSet
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSProbeIntensityArray
      • org.geworkbench.bison.datastructure.bioobjects.structure.DSProteinStructure
      • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtAnnotResultSet
      • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtDBResultSet
      • org.geworkbench.bison.datastructure.biocollections.sequences.DSSequenceSet<T> (also extends java.lang.Cloneable, org.geworkbench.bison.datastructure.biocollections.DSCollection<T>, java.util.RandomAccess, java.io.Serializable)
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSSignificanceResultSet<T>
        • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
        • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
      • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
    • org.geworkbench.bison.datastructure.biocollections.gsea.DSGSEAResultDataSet
    • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMasterRagulatorResultSet<T>
    • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceSet
    • org.geworkbench.bison.datastructure.biocollections.microarrays.DSMicroarraySet<T> (also extends org.geworkbench.bison.datastructure.biocollections.DSDataSet<T>, org.geworkbench.bison.datastructure.biocollections.DSMatrixDataSet<T>)
    • org.geworkbench.bison.datastructure.complex.panels.DSPanel<T> (also extends org.geworkbench.bison.datastructure.properties.DSDescribable, org.geworkbench.bison.datastructure.properties.DSIdentifiable, org.geworkbench.bison.datastructure.properties.DSNamed, org.geworkbench.bison.datastructure.properties.DSSequential, java.io.Serializable)
      • org.geworkbench.bison.datastructure.complex.panels.DSAnnotatedPanel<T,U>
      • org.geworkbench.bison.datastructure.complex.panels.DSAnnotPanel<T,U>
    • org.geworkbench.bison.datastructure.biocollections.pca.DSPCADataSet
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSProbeIntensityArray
    • org.geworkbench.bison.datastructure.bioobjects.structure.DSProteinStructure
    • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtAnnotResultSet
    • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtDBResultSet
    • org.geworkbench.bison.datastructure.biocollections.sequences.DSSequenceSet<T> (also extends java.lang.Cloneable, org.geworkbench.bison.datastructure.biocollections.DSCollection<T>, org.geworkbench.bison.datastructure.biocollections.DSDataSet<T>, java.util.RandomAccess, java.io.Serializable)
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSSignificanceResultSet<T>
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
    • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
  • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMasterRagulatorResultSet<T>
  • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceExperiment (also extends org.geworkbench.bison.datastructure.bioobjects.DSBioObject, org.geworkbench.bison.datastructure.bioobjects.DSPValued)
  • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceSet
  • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMicroarray
  • org.geworkbench.bison.datastructure.biocollections.microarrays.DSMicroarraySet<T> (also extends org.geworkbench.bison.datastructure.biocollections.DSDataSet<T>, org.geworkbench.bison.datastructure.biocollections.DSMatrixDataSet<T>)
  • org.geworkbench.bison.datastructure.complex.panels.DSPanel<T> (also extends org.geworkbench.bison.datastructure.properties.DSDescribable, org.geworkbench.bison.datastructure.complex.panels.DSItemList<T>, org.geworkbench.bison.datastructure.properties.DSNamed, org.geworkbench.bison.datastructure.properties.DSSequential, java.io.Serializable)
    • org.geworkbench.bison.datastructure.complex.panels.DSAnnotatedPanel<T,U>
    • org.geworkbench.bison.datastructure.complex.panels.DSAnnotPanel<T,U>
  • org.geworkbench.bison.datastructure.biocollections.pca.DSPCADataSet
  • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSPositionSpecificAffintyMatrix (also extends org.geworkbench.bison.datastructure.bioobjects.DSBioObject, org.geworkbench.bison.datastructure.bioobjects.DSPValued)
  • org.geworkbench.bison.datastructure.bioobjects.microarray.DSProbeIntensityArray
  • org.geworkbench.bison.datastructure.bioobjects.structure.DSProteinStructure
  • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtAnnotResultSet
  • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtDBResultSet
  • org.geworkbench.bison.datastructure.bioobjects.sequence.DSSequence
  • org.geworkbench.bison.datastructure.biocollections.sequences.DSSequenceSet<T> (also extends java.lang.Cloneable, org.geworkbench.bison.datastructure.biocollections.DSCollection<T>, org.geworkbench.bison.datastructure.biocollections.DSDataSet<T>, java.util.RandomAccess, java.io.Serializable)
  • org.geworkbench.bison.datastructure.bioobjects.microarray.DSSignificanceResultSet<T>
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
  • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
  • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
  • org.geworkbench.bison.model.clusters.HierCluster (also extends org.geworkbench.bison.model.clusters.Cluster, java.lang.Comparable<T>)
  • org.geworkbench.bison.model.analysis.NormalizingAnalysis
  • org.geworkbench.bison.model.analysis.ProteinAnnotationAnalysis
  • org.geworkbench.bison.model.analysis.ProteinDatabaseAnalysis
  • org.geworkbench.bison.model.analysis.ProteinSequenceAnalysis
  • org.geworkbench.bison.model.analysis.ProteinStructureAnalysis
  • org.geworkbench.bison.model.clusters.SOMCluster
• org.geworkbench.bison.datastructure.properties.DSLocusLinkIdentifiable
  • org.geworkbench.bison.datastructure.properties.DSAffyIdentifiable (also extends org.geworkbench.bison.datastructure.properties.DSUnigene)
• org.geworkbench.bison.datastructure.biocollections.DSMatrixDataSet<T>
  • org.geworkbench.bison.datastructure.biocollections.microarrays.DSMicroarraySet<T> (also extends org.geworkbench.bison.datastructure.biocollections.DSDataSet<T>)
• org.geworkbench.bison.datastructure.properties.DSNamed
  • org.geworkbench.bison.datastructure.bioobjects.sequence.DSAlignmentResultSet (also extends java.lang.Cloneable, org.geworkbench.bison.datastructure.biocollections.DSAncillaryDataSet<T>, java.util.RandomAccess, java.io.Serializable)
  • org.geworkbench.bison.datastructure.biocollections.DSAncillaryDataSet<T>
    • org.geworkbench.bison.datastructure.bioobjects.sequence.DSAlignmentResultSet (also extends java.lang.Cloneable, java.util.RandomAccess, java.io.Serializable)
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
    • org.geworkbench.bison.model.clusters.DSClusterDataSet
      • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
      • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
    • org.geworkbench.bison.datastructure.biocollections.gsea.DSGSEAResultDataSet
    • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMasterRagulatorResultSet<T>
    • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceSet
    • org.geworkbench.bison.datastructure.biocollections.pca.DSPCADataSet
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSProbeIntensityArray
    • org.geworkbench.bison.datastructure.bioobjects.structure.DSProteinStructure
    • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtAnnotResultSet
    • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtDBResultSet
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSSignificanceResultSet<T>
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
    • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
  • org.geworkbench.bison.datastructure.complex.panels.DSAnnotatedPanel<T,U>
  • org.geworkbench.bison.datastructure.complex.panels.DSAnnotPanel<T,U>
  • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
  • org.geworkbench.bison.datastructure.bioobjects.DSBioObject (also extends org.geworkbench.bison.datastructure.properties.DSDescribable, org.geworkbench.bison.datastructure.properties.DSExtendable, org.geworkbench.bison.datastructure.properties.DSHasActivation, org.geworkbench.bison.datastructure.properties.DSIdentifiable, org.geworkbench.bison.datastructure.properties.DSSequential, java.io.Serializable)
    • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceExperiment (also extends org.geworkbench.bison.datastructure.bioobjects.DSPValued)
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMicroarray
    • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSPositionSpecificAffintyMatrix (also extends org.geworkbench.bison.datastructure.bioobjects.DSPValued)
    • org.geworkbench.bison.datastructure.bioobjects.sequence.DSSequence
  • org.geworkbench.bison.model.clusters.DSClusterDataSet
    • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
    • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
  • org.geworkbench.bison.datastructure.biocollections.DSDataSet<T> (also extends org.geworkbench.bison.datastructure.properties.DSDescribable, org.geworkbench.bison.datastructure.properties.DSExtendable, org.geworkbench.bison.datastructure.complex.panels.DSItemList<T>, java.io.Serializable)
    • org.geworkbench.bison.datastructure.bioobjects.sequence.DSAlignmentResultSet (also extends java.lang.Cloneable, org.geworkbench.bison.datastructure.biocollections.DSAncillaryDataSet<T>, java.util.RandomAccess, java.io.Serializable)
    • org.geworkbench.bison.datastructure.biocollections.DSAncillaryDataSet<T>
      • org.geworkbench.bison.datastructure.bioobjects.sequence.DSAlignmentResultSet (also extends java.lang.Cloneable, java.util.RandomAccess, java.io.Serializable)
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
      • org.geworkbench.bison.model.clusters.DSClusterDataSet
        • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
        • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
      • org.geworkbench.bison.datastructure.biocollections.gsea.DSGSEAResultDataSet
      • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMasterRagulatorResultSet<T>
      • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceSet
      • org.geworkbench.bison.datastructure.biocollections.pca.DSPCADataSet
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSProbeIntensityArray
      • org.geworkbench.bison.datastructure.bioobjects.structure.DSProteinStructure
      • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtAnnotResultSet
      • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtDBResultSet
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSSignificanceResultSet<T>
        • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
        • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
      • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
    • org.geworkbench.bison.model.clusters.DSClusterDataSet
      • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
      • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
    • org.geworkbench.bison.datastructure.biocollections.gsea.DSGSEAResultDataSet
    • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMasterRagulatorResultSet<T>
    • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceSet
    • org.geworkbench.bison.datastructure.biocollections.microarrays.DSMicroarraySet<T> (also extends org.geworkbench.bison.datastructure.biocollections.DSMatrixDataSet<T>)
    • org.geworkbench.bison.datastructure.biocollections.pca.DSPCADataSet
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSProbeIntensityArray
    • org.geworkbench.bison.datastructure.bioobjects.structure.DSProteinStructure
    • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtAnnotResultSet
    • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtDBResultSet
    • org.geworkbench.bison.datastructure.biocollections.sequences.DSSequenceSet<T> (also extends java.lang.Cloneable, org.geworkbench.bison.datastructure.biocollections.DSCollection<T>, java.util.RandomAccess, java.io.Serializable)
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSSignificanceResultSet<T>
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
    • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
  • org.geworkbench.bison.datastructure.bioobjects.markers.DSGeneMarker (also extends java.lang.Cloneable, java.lang.Comparable<T>, org.geworkbench.bison.datastructure.properties.DSSequential, java.io.Serializable)
  • org.geworkbench.bison.datastructure.biocollections.gsea.DSGSEAResultDataSet
  • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
  • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMasterRagulatorResultSet<T>
  • org.geworkbench.bison.datastructure.complex.pattern.DSMatchedPattern<T,R> (also extends org.geworkbench.bison.util.DSPValue)
    • org.geworkbench.bison.datastructure.complex.pattern.sequence.DSMatchedSeqPattern
  • org.geworkbench.bison.datastructure.complex.pattern.sequence.DSMatchedSeqPattern
  • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceExperiment (also extends org.geworkbench.bison.datastructure.bioobjects.DSBioObject, org.geworkbench.bison.datastructure.bioobjects.DSPValued)
  • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceSet
  • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMicroarray
  • org.geworkbench.bison.datastructure.biocollections.microarrays.DSMicroarraySet<T> (also extends org.geworkbench.bison.datastructure.biocollections.DSDataSet<T>, org.geworkbench.bison.datastructure.biocollections.DSMatrixDataSet<T>)
  • org.geworkbench.bison.datastructure.complex.panels.DSPanel<T> (also extends org.geworkbench.bison.datastructure.properties.DSDescribable, org.geworkbench.bison.datastructure.properties.DSIdentifiable, org.geworkbench.bison.datastructure.complex.panels.DSItemList<T>, org.geworkbench.bison.datastructure.properties.DSSequential, java.io.Serializable)
    • org.geworkbench.bison.datastructure.complex.panels.DSAnnotatedPanel<T,U>
    • org.geworkbench.bison.datastructure.complex.panels.DSAnnotPanel<T,U>
  • org.geworkbench.bison.datastructure.biocollections.pca.DSPCADataSet
  • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSPositionSpecificAffintyMatrix (also extends org.geworkbench.bison.datastructure.bioobjects.DSBioObject, org.geworkbench.bison.datastructure.bioobjects.DSPValued)
  • org.geworkbench.bison.datastructure.bioobjects.microarray.DSProbeIntensityArray
  • org.geworkbench.bison.datastructure.bioobjects.structure.DSProteinStructure
  • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtAnnotResultSet
  • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtDBResultSet
  • org.geworkbench.bison.datastructure.bioobjects.sequence.DSSequence
  • org.geworkbench.bison.datastructure.biocollections.sequences.DSSequenceSet<T> (also extends java.lang.Cloneable, org.geworkbench.bison.datastructure.biocollections.DSCollection<T>, org.geworkbench.bison.datastructure.biocollections.DSDataSet<T>, java.util.RandomAccess, java.io.Serializable)
  • org.geworkbench.bison.datastructure.properties.DSSequential
    • org.geworkbench.bison.datastructure.complex.panels.DSAnnotatedPanel<T,U>
    • org.geworkbench.bison.datastructure.complex.panels.DSAnnotPanel<T,U>
    • org.geworkbench.bison.datastructure.bioobjects.DSBioObject (also extends org.geworkbench.bison.datastructure.properties.DSDescribable, org.geworkbench.bison.datastructure.properties.DSExtendable, org.geworkbench.bison.datastructure.properties.DSHasActivation, org.geworkbench.bison.datastructure.properties.DSIdentifiable, org.geworkbench.bison.datastructure.properties.DSNamed, java.io.Serializable)
      • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceExperiment (also extends org.geworkbench.bison.datastructure.bioobjects.DSPValued)
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMicroarray
      • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSPositionSpecificAffintyMatrix (also extends org.geworkbench.bison.datastructure.bioobjects.DSPValued)
      • org.geworkbench.bison.datastructure.bioobjects.sequence.DSSequence
    • org.geworkbench.bison.datastructure.bioobjects.markers.DSGeneMarker (also extends java.lang.Cloneable, java.lang.Comparable<T>, java.io.Serializable)
    • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceExperiment (also extends org.geworkbench.bison.datastructure.bioobjects.DSBioObject, org.geworkbench.bison.datastructure.bioobjects.DSPValued)
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMicroarray
    • org.geworkbench.bison.datastructure.complex.panels.DSPanel<T> (also extends org.geworkbench.bison.datastructure.properties.DSDescribable, org.geworkbench.bison.datastructure.properties.DSIdentifiable, org.geworkbench.bison.datastructure.complex.panels.DSItemList<T>, org.geworkbench.bison.datastructure.properties.DSNamed, java.io.Serializable)
      • org.geworkbench.bison.datastructure.complex.panels.DSAnnotatedPanel<T,U>
      • org.geworkbench.bison.datastructure.complex.panels.DSAnnotPanel<T,U>
    • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSPositionSpecificAffintyMatrix (also extends org.geworkbench.bison.datastructure.bioobjects.DSBioObject, org.geworkbench.bison.datastructure.bioobjects.DSPValued)
    • org.geworkbench.bison.datastructure.bioobjects.sequence.DSSequence
  • org.geworkbench.bison.datastructure.bioobjects.microarray.DSSignificanceResultSet<T>
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
  • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
  • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
• org.geworkbench.bison.datastructure.complex.pattern.DSPattern<T,R>
  • org.geworkbench.util.associationdiscovery.cluster.DSMatrixPattern
• org.geworkbench.bison.algorithm.discovery.DSPatternDiscovery
• org.geworkbench.bison.util.DSPValue
  • org.geworkbench.bison.datastructure.complex.pattern.DSMatchedPattern<T,R> (also extends org.geworkbench.bison.datastructure.properties.DSNamed)
    • org.geworkbench.bison.datastructure.complex.pattern.sequence.DSMatchedSeqPattern
  • org.geworkbench.bison.datastructure.complex.pattern.sequence.DSMatchedSeqPattern
  • org.geworkbench.bison.datastructure.complex.pattern.DSPatternMatch<T,R>
    • org.geworkbench.bison.datastructure.complex.pattern.sequence.DSSeqPatternMatch
  • org.geworkbench.bison.datastructure.complex.pattern.sequence.DSSeqPatternMatch
• org.geworkbench.bison.datastructure.bioobjects.DSPValued
  • org.geworkbench.bison.datastructure.bioobjects.DSClassification<T>
  • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceExperiment (also extends org.geworkbench.bison.datastructure.bioobjects.DSBioObject)
  • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSPositionSpecificAffintyMatrix (also extends org.geworkbench.bison.datastructure.bioobjects.DSBioObject)
• org.geworkbench.bison.datastructure.bioobjects.markers.DSRangeMarker
• org.geworkbench.bison.datastructure.properties.DSUnigene
  • org.geworkbench.bison.datastructure.properties.DSAffyIdentifiable (also extends org.geworkbench.bison.datastructure.properties.DSLocusLinkIdentifiable)
• java.util.EventListener
  • org.geworkbench.bison.algorithm.AlgorithmEventListener
  • org.geworkbench.events.HierClusterModelEventListener
  • org.geworkbench.events.LoginPanelModelListener
  • org.geworkbench.events.MicroarraySetViewListener
  • org.geworkbench.events.listeners.ProgressChangeListener
  • org.geworkbench.events.SOMClusterModelEventListener
  • org.geworkbench.events.listeners.StatusChangeListener
• org.geworkbench.util.function.IFunction
  • org.geworkbench.util.function.IProbabilityFunctionBivariate
• org.geworkbench.util.function.IProbabilityFunctionUnivariate
• java.lang.Iterable<T>
  • java.util.Collection<E>
    • java.util.List<E>
      • org.geworkbench.bison.datastructure.biocollections.DSCollection<T>
        • org.geworkbench.bison.datastructure.biocollections.sequences.DSSequenceSet<T> (also extends java.lang.Cloneable, org.geworkbench.bison.datastructure.biocollections.DSDataSet<T>, java.util.RandomAccess, java.io.Serializable)
      • org.geworkbench.bison.datastructure.complex.panels.DSItemList<T> (also extends org.geworkbench.bison.datastructure.properties.DSIdentifiable)
        • org.geworkbench.bison.datastructure.bioobjects.sequence.DSAlignmentResultSet (also extends java.lang.Cloneable, org.geworkbench.bison.datastructure.biocollections.DSAncillaryDataSet<T>, java.util.RandomAccess, java.io.Serializable)
        • org.geworkbench.bison.datastructure.biocollections.DSAncillaryDataSet<T>
          • org.geworkbench.bison.datastructure.bioobjects.sequence.DSAlignmentResultSet (also extends java.lang.Cloneable, java.util.RandomAccess, java.io.Serializable)
          • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
          • org.geworkbench.bison.model.clusters.DSClusterDataSet
            • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
            • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
          • org.geworkbench.bison.datastructure.biocollections.gsea.DSGSEAResultDataSet
          • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
          • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMasterRagulatorResultSet<T>
          • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceSet
          • org.geworkbench.bison.datastructure.biocollections.pca.DSPCADataSet
          • org.geworkbench.bison.datastructure.bioobjects.microarray.DSProbeIntensityArray
          • org.geworkbench.bison.datastructure.bioobjects.structure.DSProteinStructure
          • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtAnnotResultSet
          • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtDBResultSet
          • org.geworkbench.bison.datastructure.bioobjects.microarray.DSSignificanceResultSet<T>
            • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
            • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
          • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
          • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
        • org.geworkbench.bison.datastructure.complex.panels.DSAnnotatedPanel<T,U>
        • org.geworkbench.bison.datastructure.complex.panels.DSAnnotPanel<T,U>
        • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
        • org.geworkbench.bison.model.clusters.DSClusterDataSet
          • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
          • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
        • org.geworkbench.bison.datastructure.biocollections.DSDataSet<T> (also extends org.geworkbench.bison.datastructure.properties.DSDescribable, org.geworkbench.bison.datastructure.properties.DSExtendable, org.geworkbench.bison.datastructure.properties.DSNamed, java.io.Serializable)
          • org.geworkbench.bison.datastructure.bioobjects.sequence.DSAlignmentResultSet (also extends java.lang.Cloneable, org.geworkbench.bison.datastructure.biocollections.DSAncillaryDataSet<T>, java.util.RandomAccess, java.io.Serializable)
          • org.geworkbench.bison.datastructure.biocollections.DSAncillaryDataSet<T>
            • org.geworkbench.bison.datastructure.bioobjects.sequence.DSAlignmentResultSet (also extends java.lang.Cloneable, java.util.RandomAccess, java.io.Serializable)
            • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
            • org.geworkbench.bison.model.clusters.DSClusterDataSet
              • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
              • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
            • org.geworkbench.bison.datastructure.biocollections.gsea.DSGSEAResultDataSet
            • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
            • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMasterRagulatorResultSet<T>
            • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceSet
            • org.geworkbench.bison.datastructure.biocollections.pca.DSPCADataSet
            • org.geworkbench.bison.datastructure.bioobjects.microarray.DSProbeIntensityArray
            • org.geworkbench.bison.datastructure.bioobjects.structure.DSProteinStructure
            • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtAnnotResultSet
            • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtDBResultSet
            • org.geworkbench.bison.datastructure.bioobjects.microarray.DSSignificanceResultSet<T>
              • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
              • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
            • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
            • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
          • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
          • org.geworkbench.bison.model.clusters.DSClusterDataSet
            • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
            • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
          • org.geworkbench.bison.datastructure.biocollections.gsea.DSGSEAResultDataSet
          • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
          • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMasterRagulatorResultSet<T>
          • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceSet
          • org.geworkbench.bison.datastructure.biocollections.microarrays.DSMicroarraySet<T> (also extends org.geworkbench.bison.datastructure.biocollections.DSMatrixDataSet<T>)
          • org.geworkbench.bison.datastructure.biocollections.pca.DSPCADataSet
          • org.geworkbench.bison.datastructure.bioobjects.microarray.DSProbeIntensityArray
          • org.geworkbench.bison.datastructure.bioobjects.structure.DSProteinStructure
          • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtAnnotResultSet
          • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtDBResultSet
          • org.geworkbench.bison.datastructure.biocollections.sequences.DSSequenceSet<T> (also extends java.lang.Cloneable, org.geworkbench.bison.datastructure.biocollections.DSCollection<T>, java.util.RandomAccess, java.io.Serializable)
          • org.geworkbench.bison.datastructure.bioobjects.microarray.DSSignificanceResultSet<T>
            • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
            • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
          • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
          • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
        • org.geworkbench.bison.datastructure.biocollections.gsea.DSGSEAResultDataSet
        • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
        • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMasterRagulatorResultSet<T>
        • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceSet
        • org.geworkbench.bison.datastructure.biocollections.microarrays.DSMicroarraySet<T> (also extends org.geworkbench.bison.datastructure.biocollections.DSDataSet<T>, org.geworkbench.bison.datastructure.biocollections.DSMatrixDataSet<T>)
        • org.geworkbench.bison.datastructure.complex.panels.DSPanel<T> (also extends org.geworkbench.bison.datastructure.properties.DSDescribable, org.geworkbench.bison.datastructure.properties.DSIdentifiable, org.geworkbench.bison.datastructure.properties.DSNamed, org.geworkbench.bison.datastructure.properties.DSSequential, java.io.Serializable)
          • org.geworkbench.bison.datastructure.complex.panels.DSAnnotatedPanel<T,U>
          • org.geworkbench.bison.datastructure.complex.panels.DSAnnotPanel<T,U>
        • org.geworkbench.bison.datastructure.biocollections.pca.DSPCADataSet
        • org.geworkbench.bison.datastructure.bioobjects.microarray.DSProbeIntensityArray
        • org.geworkbench.bison.datastructure.bioobjects.structure.DSProteinStructure
        • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtAnnotResultSet
        • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtDBResultSet
        • org.geworkbench.bison.datastructure.biocollections.sequences.DSSequenceSet<T> (also extends java.lang.Cloneable, org.geworkbench.bison.datastructure.biocollections.DSCollection<T>, org.geworkbench.bison.datastructure.biocollections.DSDataSet<T>, java.util.RandomAccess, java.io.Serializable)
        • org.geworkbench.bison.datastructure.bioobjects.microarray.DSSignificanceResultSet<T>
          • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
          • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
        • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
        • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
• java.util.Iterator<E>
  • org.geworkbench.bison.model.clusters.Cluster (also extends org.geworkbench.bison.datastructure.properties.DSIdentifiable)
    • org.geworkbench.bison.model.clusters.HierCluster (also extends java.lang.Comparable<T>)
    • org.geworkbench.bison.model.clusters.SOMCluster
• org.geworkbench.engine.config.events.ListenerRegistry
• java.util.Map<K,V>
  • org.geworkbench.bison.annotation.DSCriteria<T>
• org.geworkbench.events.listeners.MarkerInfoPanelSelectedListener
• org.geworkbench.engine.config.MenuListener
• org.geworkbench.util.annotation.Pathway
• java.util.RandomAccess
  • org.geworkbench.bison.datastructure.bioobjects.sequence.DSAlignmentResultSet (also extends java.lang.Cloneable, org.geworkbench.bison.datastructure.biocollections.DSAncillaryDataSet<T>, java.io.Serializable)
  • org.geworkbench.bison.datastructure.biocollections.sequences.DSSequenceSet<T> (also extends java.lang.Cloneable, org.geworkbench.bison.datastructure.biocollections.DSCollection<T>, org.geworkbench.bison.datastructure.biocollections.DSDataSet<T>, java.io.Serializable)
• org.geworkbench.analysis.ReHighlightable
• org.geworkbench.bison.parsers.resources.Resource
• java.io.Serializable
  • org.geworkbench.bison.model.analysis.AnalysisParameters
  • org.geworkbench.bison.util.colorcontext.ColorContext
  • org.geworkbench.bison.datastructure.bioobjects.sequence.DSAlignmentResultSet (also extends java.lang.Cloneable, org.geworkbench.bison.datastructure.biocollections.DSAncillaryDataSet<T>, java.util.RandomAccess)
  • org.geworkbench.bison.util.DSAnnotValue
  • org.geworkbench.bison.datastructure.bioobjects.DSBioObject (also extends org.geworkbench.bison.datastructure.properties.DSDescribable, org.geworkbench.bison.datastructure.properties.DSExtendable, org.geworkbench.bison.datastructure.properties.DSHasActivation, org.geworkbench.bison.datastructure.properties.DSIdentifiable, org.geworkbench.bison.datastructure.properties.DSNamed, org.geworkbench.bison.datastructure.properties.DSSequential)
    • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceExperiment (also extends org.geworkbench.bison.datastructure.bioobjects.DSPValued)
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMicroarray
    • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSPositionSpecificAffintyMatrix (also extends org.geworkbench.bison.datastructure.bioobjects.DSPValued)
    • org.geworkbench.bison.datastructure.bioobjects.sequence.DSSequence
  • org.geworkbench.bison.datastructure.biocollections.DSDataSet<T> (also extends org.geworkbench.bison.datastructure.properties.DSDescribable, org.geworkbench.bison.datastructure.properties.DSExtendable, org.geworkbench.bison.datastructure.complex.panels.DSItemList<T>, org.geworkbench.bison.datastructure.properties.DSNamed)
    • org.geworkbench.bison.datastructure.bioobjects.sequence.DSAlignmentResultSet (also extends java.lang.Cloneable, org.geworkbench.bison.datastructure.biocollections.DSAncillaryDataSet<T>, java.util.RandomAccess, java.io.Serializable)
    • org.geworkbench.bison.datastructure.biocollections.DSAncillaryDataSet<T>
      • org.geworkbench.bison.datastructure.bioobjects.sequence.DSAlignmentResultSet (also extends java.lang.Cloneable, java.util.RandomAccess, java.io.Serializable)
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
      • org.geworkbench.bison.model.clusters.DSClusterDataSet
        • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
        • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
      • org.geworkbench.bison.datastructure.biocollections.gsea.DSGSEAResultDataSet
      • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMasterRagulatorResultSet<T>
      • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceSet
      • org.geworkbench.bison.datastructure.biocollections.pca.DSPCADataSet
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSProbeIntensityArray
      • org.geworkbench.bison.datastructure.bioobjects.structure.DSProteinStructure
      • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtAnnotResultSet
      • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtDBResultSet
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSSignificanceResultSet<T>
        • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
        • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
      • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
    • org.geworkbench.bison.model.clusters.DSClusterDataSet
      • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
      • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
    • org.geworkbench.bison.datastructure.biocollections.gsea.DSGSEAResultDataSet
    • org.geworkbench.bison.model.clusters.DSHierClusterDataSet
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMasterRagulatorResultSet<T>
    • org.geworkbench.bison.datastructure.complex.pattern.matrix.DSMatrixReduceSet
    • org.geworkbench.bison.datastructure.biocollections.microarrays.DSMicroarraySet<T> (also extends org.geworkbench.bison.datastructure.biocollections.DSMatrixDataSet<T>)
    • org.geworkbench.bison.datastructure.biocollections.pca.DSPCADataSet
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSProbeIntensityArray
    • org.geworkbench.bison.datastructure.bioobjects.structure.DSProteinStructure
    • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtAnnotResultSet
    • org.geworkbench.bison.datastructure.bioobjects.structure.DSPrtDBResultSet
    • org.geworkbench.bison.datastructure.biocollections.sequences.DSSequenceSet<T> (also extends java.lang.Cloneable, org.geworkbench.bison.datastructure.biocollections.DSCollection<T>, java.util.RandomAccess, java.io.Serializable)
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSSignificanceResultSet<T>
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAnovaResultSet<T>
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
    • org.geworkbench.bison.model.clusters.DSSOMClusterDataSet
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSTTestResultSet<T>
  • org.geworkbench.bison.datastructure.biocollections.views.DSDataSetView<Q>
    • org.geworkbench.bison.datastructure.biocollections.views.DSMatrixDataSetView<Q>
      • org.geworkbench.bison.datastructure.biocollections.views.DSMicroarraySetView<T,Q>
    • org.geworkbench.bison.datastructure.biocollections.views.DSMicroarraySetView<T,Q>
  • org.geworkbench.bison.datastructure.bioobjects.markers.DSGeneMarker (also extends java.lang.Cloneable, java.lang.Comparable<T>, org.geworkbench.bison.datastructure.properties.DSSequential)
  • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMarkerValue (also extends java.lang.Comparable<T>)
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAffyMarkerValue
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSGenepixMarkerValue
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSGenotypicMarkerValue
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMutableMarkerValue (also extends java.io.Serializable)
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAffyMarkerValue
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSGenepixMarkerValue
      • org.geworkbench.bison.datastructure.bioobjects.microarray.DSGenotypicMarkerValue
  • org.geworkbench.bison.datastructure.bioobjects.microarray.DSMutableMarkerValue (also extends org.geworkbench.bison.datastructure.bioobjects.microarray.DSMarkerValue)
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSAffyMarkerValue
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSGenepixMarkerValue
    • org.geworkbench.bison.datastructure.bioobjects.microarray.DSGenotypicMarkerValue
  • org.geworkbench.bison.datastructure.complex.panels.DSPanel<T> (also extends org.geworkbench.bison.datastructure.properties.DSDescribable, org.geworkbench.bison.datastructure.properties.DSIdentifiable, org.geworkbench.bison.datastructure.complex.panels.DSItemList<T>, org.geworkbench.bison.datastructure.properties.DSNamed, org.geworkbench.bison.datastructure.properties.DSSequential)
    • org.geworkbench.bison.datastructure.complex.panels.DSAnnotatedPanel<T,U>
    • org.geworkbench.bison.datastructure.complex.panels.DSAnnotPanel<T,U>
  • org.geworkbench.bison.datastructure.biocollections.sequences.DSSequenceSet<T> (also extends java.lang.Cloneable, org.geworkbench.bison.datastructure.biocollections.DSCollection<T>, org.geworkbench.bison.datastructure.biocollections.DSDataSet<T>, java.util.RandomAccess)
  • org.geworkbench.util.network.GeneNetworkEdge
• org.geworkbench.engine.management.SynchModel
• org.geworkbench.util.TrainingProgressListener
• org.geworkbench.util.TrainingTask
• org.geworkbench.engine.config.VisualPlugin

Annotation Type Hierarchy

• org.geworkbench.engine.management.Subscribe (implements java.lang.annotation.Annotation)
• org.geworkbench.engine.management.Script (implements java.lang.annotation.Annotation)
• org.geworkbench.engine.management.Publish (implements java.lang.annotation.Annotation)
• org.geworkbench.engine.management.Module (implements java.lang.annotation.Annotation)
• org.geworkbench.engine.management.Documentation (implements java.lang.annotation.Annotation)
• org.geworkbench.engine.management.AcceptTypes (implements java.lang.annotation.Annotation)

Enum Hierarchy

• java.lang.Object
  • java.lang.Enum<E> (implements java.lang.Comparable<T>, java.io.Serializable)
    • org.geworkbench.bison.datastructure.bioobjects.microarray.CSGenepixMarkerValue.ComputeSignalMethod
    • org.geworkbench.bison.datastructure.complex.pattern.matrix.CSPSAMRegistration.Organism
    • org.geworkbench.bison.model.analysis.FilteringAnalysis.CriterionOption
    • org.geworkbench.events.ImageSnapshotEvent.Action
    • org.geworkbench.events.DiscoverEvent.Action
    • org.geworkbench.events.AdjacencyMatrixEvent.Action
    • org.geworkbench.util.FastMatrixModel.Metric
    • org.geworkbench.util.threading.SwingWorker.StateValue