All Classes

AbsoluteFocusPanel AcceptSpecies ACGT ACGTEncoder ActionInfo ActionPackage ActionPackageAlias AddAction AGPPullParser Alignment AlignmentResult AminoAcid Animation Assembly AXTAlignment AXTLens BarGraphCanvas BED2Silk BED2Silk.BEDHeaderAttribute BED2Silk.BEDHeaderDescription BED2SilkReader BEDDatabase BEDDatabase.BEDRangeQuery BEDDatabase.DBBuilder BEDEntry BEDGene BEDLexer BEDParser BEDParser.attribute_return BEDParser.attributeValue_return BEDParser.description_return BEDParser.descriptionName_return BEDQuery BEDTrack BEDTrack BEDViewer Blast2Silk Blast2Silk.Blast2SilkConverter Blast2Silk.BlastResult Blast2Silk.BlastResult.BlastAlignment Blast2Silk.BlastResult.BlastAlignment.Strand Blast2Silk.PeekableReader BlastResult BlockReader BlockwiseFileReader BooleanType Border BrowserInfo BrowserInfo.Agent BrowserService BrowserServiceAsync BrowserServiceImpl BSSRead BSSReadView BSSReadView.BSSAlignment CanonicalProperties CDS ChrInterval ChrLoc ChromosomeMap ChromosomeMap.Comparator4ChrName ChromosomeMap.CytoBandComprator ChromosomeMap.ReadLocus ChromosomeMapCanvas ChromosomeMapTrack ChromosomeWindow ChrRange CIGAR CIGAR.Element CIGAR.Type Clean CodonTable ColorType ColorUtil CompactACGT CompactACGTWriter CompactFASTA CompactFASTA.PacFileAccess CompactFASTAGenerator CompactFASTAIndex CompactWIGData Compile ConfigInputForm ConnectionInfo Content Convert Coordinate Coordinate Create Create.CreateAllScaffoldFileFilter Create.OverwriteMode Create.ScaffoldFileFilter CSEGDatabase CSEGDatabase.Config CSEGTrack CSEGViewer CSEGViewer.SEGData CytoBand DASDsn DASDsn.DSN DASDsn.DSNQuery DASDsn.DSNSource DASLocation DASResult DASResult.DASFeature DASResult.DASFeature.FeatureType DASResult.DASFeature.Group DASResult.DASFeature.Group.Link DASResult.DASFeature.Method DASResult.DASFeature.Target DASResult.DASGFF DASResult.Segment DASTrack DASViewer DatabaseCatalog DatabaseEntry DatabaseInfo DatabaseTable DataType DataTypeBase DBSelectTrack DebugToolBoxTrack DefaultRequestMap Deploy Design DisjointSet DispType DOMUtil DotPlot DoubleType DraggableTable DragListener DrawHistogram DynamicForm EagyGeneLine EchoBackView Eclipse EditableLabel EditableTable EGTXMLReader EGTXMLReader.Opt EnhancedGeneticVariation EnhancedGeneticVariation.MutationPosition EnhancedGeneticVariation.MutationType EventImpl Exon Exon FASTA FASTA.RawStringWrapper FASTADatabase FASTADatabase.Config FASTADatabase.NSeq FASTADatabase.TextOutput FASTAPullParser FASTASequence FASTASequence FastqRead FastqReader FastqRename FastqSplitReader FastqToBAM FastqToFasta FastqToSAM FastqToSilkReader FileBlock FileUtil FixedWidthLabel FloatType FontMetric FontPanel FontPanel.FontInfo FormatConversionReader FormatConversionReader.PipeConsumer FormLabel Frame Frame FrameBorder FrameButtonListener FrameCommand FrameCommandImpl FrameOperation Gap Gene Gene GeneCanvas GeneticVariation GeneticVariation.VariationType GeneViewer GenomeCanvas GenomeCoordinate GenomeDB GenomeDB.DBType GenomeKeywordEntry GenomeKeywordEntry.KeywordAlias GenomeRange GenomeRangeDataSet GenomeRangeVisitor GenomeRangeVisitorBase GenomeSequence GenomeTrack GenomeTrackTextTest GenomeWindow GETMethodURL GFF3Entry GFF3Reader GradationType GraphData GraphicUtil GraphScale GraphWindow GWT GWTCompile GWTGenomeCanvas GWTGenomeCanvas.CoverageStyle GWTGenomeCanvas.DragPoint GWTGraphCanvas GWTGraphCanvas.GraphStyle GWTGraphCanvas.Indent HasTouchHandlers Hello HelloServlet HiddenParameter HorizontalBorder HorizontalTrackFrame HTMLContentFilter Icon Icon IconImage IconSetPanel Illumina2Fastq ImageHandle ImageLoader ImageLoader.CallBack Import Import.FileType ImportBustard ImportStmt InfoSilkGenerator InputForm IntegerType Interval IntervalLayout IntervalLayout.IntervalRetriever IntervalLayout.LocusLayout IntervalTree IUPAC JDBCService JDBCService.GenericDBAccess JDBCService.HSQLDBAccess JSONUtil Keyword Keyword.SubCommand KeywordAliasReader KeywordDB KeywordSearch KeywordSearchResult KeywordSearchResult.Entry KeywordSearchTrack Kmer KmerIntegerFactory Layer LegacyTrackInformation LinkOperation LoadView LocusClickHandler LowerBoundType Maven Maven.CommandExecutor MenuOperation MenuOperationItem Message MessageType MethylViewer MethylViewer.MethlEntry MiniBrowserTrack MouseClickEventImpl MouseMoveListener NavigatorTrack NodeListImpl NowLoadingIcon ObjectStreamReader ObjectStreamReader.TextFormatToObjectMapper OldDescriptionXML OldDescriptionXMLReader OldUTGBAddTrackTrack OldUTGBFrameCommandImpl OldUTGBFrameCommandImpl.FrameMoveAbsCommand OldUTGBFrameCommandImpl.FrameMoveRelCommand OldUTGBFrameCommandImpl.FrameParameterSetCommand OldUTGBFrameCommandImpl.FrameRevCommand OldUTGBFrameCommandImpl.FrameSetEndCommand OldUTGBFrameCommandImpl.FrameSetRevisionCommand OldUTGBFrameCommandImpl.FrameSetSpeciesCommand OldUTGBFrameCommandImpl.FrameSetStartCommand OldUTGBFrameCommandImpl.FrameSetTargetCommand OldUTGBFrameCommandImpl.FrameZoomAbsCommand OldUTGBOperationParser OldUTGBOptionAttribute OldUTGBProperty OldUTGBPropertyTrack OldUTGBRulerTrack OldUTGBSubOperationImpl OldUTGBTrack OldUTGBTrackGroup OldViewXML OldViewXML.GroupProperties OldViewXML.Prop OldViewXML.Track OldViewXML.TrackGroup OldViewXML.TrackWindow Operation OperationArea OperationImpl OperationParser OperationParserImpl OperationTrack Option Optional OSInfo OSType OverlappingKmerIterator Pack Parameter Parameter ParameterMap ParameterTrack PasswordType PathElement POM POMProperties PrioritySearchTree PrioritySearchTree.ResultHandler PrioritySearchTree.Visitor Properties PropertyEditTrack PSLLine PSLPullParser QSeqToFASTQ QSeqToFastq RandomAccess Range RangeSelectable Read Read Read.ReadType ReadCanvas ReadCanvas.DrawStyle ReadCoverage ReadDBBuilder ReadDBBuilder.ReferenceReader ReadDepth ReadDepth.DepthOutput ReadDisplayStyle ReaderInputStream ReadList ReadQueryConfig ReadQueryConfig.Layout ReadStat ReadStat.ReadAlignmentStat ReadSweeper ReadSweeper.ReadSetHandler ReadTrack ReadView Reference ReferenceSequence RefSeqTrack RegionQueryExpr Relation Repair RepeatChainFinder RepeatChainFinder.FlippedInterval2D RepeatChainFinder.Interval2D RepeatChainFinder.IntervalCluster RequestDispatcher RequestHandler RequestHandlerBase RequestHandlerTable RequestMap RequestURI Result Ribbon Ribbon Ribbon.Crease Ribbon.CreaseType Ribbon.RibbonSegment Ribbon.RibbonSegment.SegmentType RibbonBrowser RibbonCanvas RibbonCanvas RibbonRuler RibbonRulerTrack RoundCircle RoundCornerFrame RPCServiceManager RulerTrack SAM2Silk SAM2SilkReader Sam2Wig Sam2WigConverter Sam2WigConverter.CoverageWriter Sam2WigConverter.SAMRecordCursor SAMCanvas SAMLens SAMQueryTrack SAMRead SAMReader SAMReader.CompleteSAMReadFactory SAMReader.LightWeightSAMReadFactory SAMReader.SAMReadFactory SAMReadFlag SAMReadIterator SAMReadLight SAMReadPair SAMReadPairFragment SAMToFastq SAMToFastq SAMTrack SAMViewer ScaffoldGenerator Scale ScaleBar ScaleBarTrack ScreenShot ScrollButtonTrack SearchResult SEGRecord SelectType Seq2Fastq Sequence Sequence Sequence.JSONOutput Sequence.SequenceRetrieverBase Sequence.TextOutput Sequence.XMLOutput SequenceInfo SequenceRulerTrack Server ServerListener ServletUtil Snappy SnappyVersion SOFA SourcesWidgetSizeChanges SourcesWindowEvents Species SpeciesEntry SpeciesRevision SQLiteAccessSample StandardInputStream StandardOutputStream StringListType StringType StringUtil StringUtil Style SubOperation SVGPanel SVNAdd Switch Tab TabbedTrackFrame TabDropController TabEntry TabEntry.TabEntryFactory TabEventListener TableChangeListener TableData TabViewer Tag TestHelper TextContentFilter TextImage TextLabel TextType TomcatServer TomcatServer.Opt TomcatServerConfiguration ToolBoxTrack Touch TouchableComposite TouchableFocusPanel TouchCancelEvent TouchCancelHandler TouchEndEvent TouchEndHandler TouchEvent TouchMoveEvent TouchMoveHandler TouchStartEvent TouchStartHandler Track Track.TrackFactory TrackBase TrackBase.TrackFrameConfig TrackBean TrackButtonListener TrackButtonListenerAdapter TrackComparator TrackConfig TrackConfigChange TrackConfigChangeImpl TrackConfiguration TrackDescription TrackDisplay TrackDisplay.DB TrackDisplay.Track TrackEntry TrackFactoryHolder TrackFactorySetup TrackFrame TrackFrame TrackFrame TrackFrameState TrackGenTrack TrackGroup TrackGroupBean TrackGroupProperty TrackGroupPropertyBean TrackGroupPropertyChange TrackGroupPropertyChangeListener TrackGroupPropertyChangeListenerAdapter TrackGroupPropertyImpl TrackGroupPropertyWriter TrackInfo TrackInfoChangeListener TrackLayoutManager TrackLoaderGenerator TrackLoaderGenerator.Config TrackPanel TrackPanelBase TrackQueue TrackRangeSelector TrackTitleBar TrackTreeTrack TrackUpdateListener TrackUpdateListenerAdapter TrackView TrackView.Coordinate TrackView.Track TrackView.TrackGroup TrackWindow TrackWindowBean TrackWindowChain TrackWindowChain.WindowUpdateInfo TrackWindowPanel Transparent TreePanel TreeView Upgrade UpperBoundType URLQueryArgumentTrack UsingTemplate UTGB UTGBClientErrorCode UTGBClientException UTGBCommandBase UTGBConfig UTGBConfig.Database UTGBConfig.WebAction UTGBDesignFactory UTGBEntryPointBase UTGBErrorCode UTGBException UTGBImageBundle UTGBMaster UTGBPortable UTGBPortableConfig UTGBPortableWidget UTGBPortableWidget.MessageType UTGBProperty UTGBShell UTGBShell.UTGBShellOption UTGBShellCommand UTGBShellCommandBase UTGBShellException Utilities Value ValueDomain ValueParameter ValueSelectorTrack VariationAnnotator VerticalDraggableTrackPanel ViewLoaderTrack WeaverCanvas WeaverMainFrame WebApplicationResource WebBrowser WebTrackBase WidgetDesign WidgetSizeChangeListener WIG2Silk WIG2Silk.WIGHeaderAttribute WIG2Silk.WIGHeaderDescription WIG2SilkReader WIGDatabaseGenerator WIGDatabaseGenerator.WIGHeaderAttribute WIGDatabaseGenerator.WIGHeaderDescription WIGDatabaseReader WIGDatabaseReader.AvgSelector WIGDatabaseReader.MAXSelector WIGDatabaseReader.MedianSelector WIGDatabaseReader.MINSelector WIGGraphCanvasTrack WigGraphData WIGLexer WIGParser WIGParser.attribute_return WIGParser.attributeValue_return WIGParser.description_return WIGParser.descriptionName_return WIGTrack WindowBox WindowControlTrack WindowListener WindowTitleBar Worker WorkQueue XMLAttribute XMLUtil XMLWriter