All Classes
AboutWindow
AccessFoldWindow
ActionHandler
ActionHandlers
AnnotationMenu
AppInfo
AppInfo.AppInfoProvider
AppLog
AppMainFrame
ASTAction
ASTAssignment
ASTGuiReference
ASTGuiSearchCriteria
ASTLiteral
ASTNamedArgument
ASTRoot
ASTVarRef
BackgroundWorker
BackgroundWorker.ErrorInfo
BackgroundWorker.StateChangeEventArgs
CalcParams
CharConstants
CharType
ChildWindow
ChildWindow.CommandInfo
ClassLoaderInfo
ClassMatcher
ClassMatcher.MultiClassMatcher
ClassMatcher.SingleClassMatcher
Colors
CommandLineParser
CommandLineParser.Argument
CommandLineParser.FlagArg
CommandLineParser.FlagDef
CommandLineParser.ParamAffinity
CommandLineParser.ParseResults
CommandLineParser.UnnamedArg
CommandLineSplitter
ComposableBase
ComposableBase.BinaryMatcher
ComposableBase.BinaryMatcher.And
ComposableBase.BinaryMatcher.Or
ComposableBase.BinaryMatcher.Xor
ComposableBase.Identity
ComposableBase.Inverse
ComposableMatcher
ConsoleTools
ConsoleTools.FixedStream
Constants
ConstraintsMenu
Convert
ConverterFilter
DateHelper
DescriptionMatcher
DesignWindow
Displayable
DotPlotBackend
DotPlotBackendProxyJNI
DotsMenu
DrawingWindow
DuplexFoldWindow
DynalignFoldWindow
DynalignRefoldWindow
Efn2Window
EventArgs
EventArgs.ActionEventArgs
EventArgs.BoolEventArgs
EventArgs.EventObjectArgs
EventArgs.InfoBagEventArgs
EventArgs.IntEventArgs
EventArgs.ObjEventArgs
EventArgs.StringEventArgs
EventSource
EventSource.Manager
EventSource.Manager.Subscriber
EventSource.NoArg
EventSource.OneArg
EventSource.TwoArgs
ExceptionHelper
ExtendedBufferedReader
ExtensibleException
FileFilters
FileMenu
FileSelectedEvent
FileType
Filter
FoldDoubleWindow
FoldSingleWindow
FoldSuboptimalWindow
FormatterException
GuiAppManager
GuiFinder
GuiItemNotFoundException
GuiItemRef
GuiItemRef.ComponentMatcher
GuiRelative
GuiRobot
GuiRobot.ModifierKey
GuiTestScriptParser
GuiTestScriptParser.JJCalls
GuiTestScriptParser.LookaheadSuccess
GuiTestScriptParserConstants
GuiTestScriptParserTokenManager
GuiTestScriptParserTreeConstants
HelpMenu
ImageDialog
ImageGrabber
InternalWindow
InternalWindow.CommandInfo
JavaCharStream
JJTGuiTestScriptParserState
JniLoader
JniLoader.NativeLibLoadError
KeyAlreadyExistsException
Listener
MagicConstant
MainMenu
MathUtil
MaxExpectWindow
MenuList
MenuRolloverAdapter
ModuleWindow
MRUFileStorage
MultilignWindow
MultiWindow
NamedArg
Node
NotNull
NucleicAcidMenu
Nullable
NullPrintStream
NullPrintStream.NullByteArrayOutputStream
ObjTools
ObjTools.RefBool
ObjTools.RefInt
ObjTools.RefStr
OligoScreenWindow
OligoWalkWindow
OSInfo
OSInfo.OSType
Pair
ParseException
ParseFormatException
PartitionDoubleWindow
PartitionSingleWindow
PathTools
PathTools.FileName
PlotDialog
PlotMenu
PlotRunner
PredictBimolStructureWindow
PredictionResultsWindow
PredictionResultsWindow.PlotResult
PredictMenu
PredictMultiStructureWindow
PredictSingleStructureWindow
PredictTwoStructureWindow
PredictWindowBase
PredictWindowBase.BackgroundTask
PredictWindowBase.PredictTaskBase
ProbKnotWindow
PseudoknotWindow
RefoldWindow
RequestFocusListener
ResourceLoader
Resources
RNAstructure
RNAstructureBackendCalculator
RNAstructureBackendCalculatorProxyJNI
RolloverListener
RunFunc
RunnableOnce
RunnerTemplate
RunOnce
RuntimeTools
RuntimeTools.ActionArgumentException
RuntimeTools.ActionException
RuntimeTools.UnsupportedActionException
ScreenCapture
Script
ScriptActions
ScriptNode
ScriptNodePropConstants
ScriptRunner
ScriptRuntime
ScriptRuntimeException
SequenceDisplayWindow
SimpleDataSerializer
SimpleDataSerializer.OutputFormatSettings
SimpleDataSerializer.SSONList
SimpleDataSerializer.SSONMap
SimpleDataSerializer.Token
SimpleDataSerializer.TokenPattern
SimpleNode
Startup
Startup.AppOptions
Startup.ScriptSource
StochasticWindow
StopWatch
StringBuilderEx
Strings
StructureBackend
StructureBackendProxyJNI
StructureDialog
StructureDialog.DrawOptions
StructureMenu
StructureRunner
SwingClassMatchers
SyntaxErrorException
ToFriendlyString
Token
TokenMgrError
TreeNode
Tuple
Tuple.Pair
Tuple.Quad
Tuple.Singlet
Tuple.Triplet
TurboFoldWindow
UserOptions
Verbosity
Version
VisibilityMatcher