- a -
- A3MToCS()
: HHblits
- A3MToProfile()
: HHblits
- About()
: InitMenuBar
- accept()
: FileTypeDialog
- Acquire()
: AdminRights
- Activate()
: Shader
, Tool
- ActivateOverlay()
: OverlayManager
- ActivateTool()
: ToolBar
- ActiveNodesChanged()
: SceneWin
, InspectorWidget
- ActiveToolChanged()
: GLWin
, ToolManager
- Add()
: AminoAcidSet
, Distances
, Dist2Mean
, GfxNode
, GradientEdit
, GradientPresetWidget
, GfxNode
, PresetEditor
, PresetWidget
, FastSphereRenderer
, Scene
, IndexedVertexArray
, PointlistOverlay
, ToolOptionEnum
, WidgetPool
, InfoSet
, StarLoopDesc
, PDBize
, SpatialOrganizer< ITEM, VEC >
- add_scalar()
: ImageStateImpl< T, D >
- AddAction()
: ContextMenu
, ToolBar
- AddAddRule()
: GromacsBlockModifier
- AddAlignedSeq()
: MMCifInfoStructRef
- AddAlignment()
: SequenceViewer
- AddAllInclusiveBonds()
: EntityView
- AddAltAtomPos()
: EditorBase
, ResidueImpl
- AddAngle()
: BuildingBlock
, Forcefield
, GromacsBlockModifier
- AddAtom()
: Compound
, Diag
, GfxView
, ChainView
, EntityView
, BuildingBlock
, ResidueView
- AddAtomInternal()
: EntityView
- AddAtomRenamingRule()
: Forcefield
- AddAuthorsToCitation()
: MMCifInfo
- AddBioUnit()
: MMCifInfo
- AddBlockModifier()
: Forcefield
- AddBond()
: Compound
, GfxView
, AtomView
, EntityView
, BuildingBlock
, Forcefield
, GromacsBlockModifier
- AddBuildingBlock()
: Forcefield
- AddButton()
: ButtonBox
- AddButtonBox()
: ButtonBar
- AddCallback()
: Progress
- AddChain()
: Diag
, SequenceViewObject
, MMCifInfoBioUnit
, EntityView
- AddChild()
: SceneNode
- AddCitation()
: MMCifInfo
- AddCMap()
: BuildingBlock
, Forcefield
, GromacsBlockModifier
, Topology
- AddCol()
: Table
- AddColumn()
: ProfileHandle
- AddCommand()
: PythonInterpreterWorker
- AddCompound()
: CompoundLib
- AddConstraint()
: BuildingBlock
, Forcefield
- AddContext()
: PythonContext
- AddCyl()
: PrimList
- AddCylinder()
: IndexedVertexArray
- AddDefault()
: InfoHandle
- AddDeleteAtom()
: GromacsBlockModifier
- AddDiag()
: Diagnostics
- AddDif()
: MMCifInfoStructRefSeq
- AddDihedral()
: BuildingBlock
, Forcefield
, GromacsBlockModifier
- AddDisplayMode()
: BaseViewObject
- AddDistance()
: DistanceMap
- AddDistanceConstraint()
: Topology
- AddDockWidget()
: MainWindow
- AddEntity()
: SequenceViewer
- addError()
: _XMLTestResult
- AddExclusion()
: BuildingBlock
, Topology
- addFailure()
: _XMLTestResult
- AddFGMDHBondAcceptor()
: Topology
- AddFGMDHBondDonor()
: Topology
- AddFrame()
: CoordGroupHandle
, CoordSource
, InMemCoordSource
- AddFrames()
: CoordGroupHandle
- AddGradientToInfo()
: GradientListModel
- AddHarmonicAngle()
: Topology
- AddHarmonicBond()
: Topology
- AddHarmonicDistanceRestraint()
: Topology
- AddHarmonicImproper()
: Topology
- AddHarmonicPositionRestraint()
: Topology
- AddHydrogenConstructor()
: Forcefield
- AddHydrogenRule()
: GromacsHydrogenConstructor
- AddIcoSphere()
: IndexedVertexArray
- AddImplicitGenborn()
: Forcefield
- AddImproper()
: BuildingBlock
, Forcefield
, GromacsBlockModifier
- AddInt()
: Diag
- AddItem()
: GradientListModel
, PresetEditorListModel
, PresetListModel
- AddLabel()
: GfxObj
- AddLF()
: IsosurfaceGenerator
- AddLine()
: PrimList
, IndexedVertexArray
- AddLJ()
: Forcefield
- AddLJPair()
: Forcefield
, Topology
- AddMass()
: Forcefield
- AddMesh()
: PrimList
- AddMMCifEntityIdTr()
: MMCifInfo
- AddMMCifPDBChainTr()
: MMCifInfo
- AddNode()
: Polygon2
, SceneWinModel
, PolygonMask
- AddNodeEntryList()
: BackboneTrace
- AddObserver()
: RenderOptions
- AddOp()
: Preset
- AddOperation()
: MMCifInfo
- AddOperations()
: MMCifInfoBioUnit
- AddOption()
: ToolOptionGroup
, ToolOptions
- AddOverlay()
: DataViewer
, OverlayManager
- addParticle()
: DensityForce
- AddPDBMMCifChainTr()
: MMCifInfo
- AddPeriodicDihedral()
: Topology
- AddPeriodicImproper()
: Topology
- AddPersistentWidget()
: MainArea
- AddPoint()
: PointCloud
, PrimList
- AddPointCloud()
: PointCloudManager
- AddPositionConstraint()
: Simulation
, Topology
- AddPositionConstraints()
: Simulation
- AddPresetToInfo()
: PresetListModel
- AddProfile()
: ProfileDB
- AddQuad()
: IndexedVertexArray
- AddReplaceRule()
: GromacsBlockModifier
- AddResidue()
: Diag
, ChainView
, EntityView
- AddResidueRenamingRule()
: Forcefield
- AddRevision()
: MMCifInfoRevisions
, MMCifInfo
, MMCifInfoRevisions
, MMCifInfo
- AddRow()
: Table
- AddSecondaryConnector()
: AtomImpl
- AddSequence()
: SequenceViewObject
, AlignmentHandle
, SequenceListImpl
, ConstSequenceList
, SequenceList
- AddSink()
: MultiLogSink
- AddSphere()
: PrimList
, IndexedVertexArray
- addState()
: StateMachine
- AddStop()
: GradientEdit
- AddString()
: Diag
- AddText()
: PrimList
- AddToken()
: PythonContext
- AddTool()
: ToolManager
- AddTorsion()
: EditorBase
, EntityImpl
, ResidueImpl
- AddTrajectory()
: TrajWidget
- addTransition()
: State
- AddTri()
: IndexedVertexArray
, SurfaceImpl
, SurfaceHandle
- AddTriN()
: IndexedVertexArray
- AddUreyBradleyAngle()
: Topology
- AddVertex()
: SurfaceImpl
, SurfaceHandle
- AddView()
: EntityRenderer
, SceneWin
- AddViewMode()
: PanelBar
- AddWidget()
: MainArea
, PanelBar
, PanelManager
, ComboOptionsWidget
, ToolBarOptionsWidget
- AddWidgetByName()
: PanelManager
- AddWidgetToApp()
: GostyApp
- AddWidgetToPool()
: PanelManager
- AdjacencyBitmap()
: AdjacencyBitmap
- AdjustPhaseOrigin()
: ImageStateImpl< T, D >
- AdminRights()
: AdminRights
- AdvanceProgress()
: Progress
- AlgorithmBase()
: AlgorithmBase
- Align()
: AlignmentContextMenu
- AlignedColumn()
: AlignedColumn
- AlignedColumnIterator()
: AlignedColumnIterator
- AlignedCuboid()
: AlignedCuboid
- AlignedRegion()
: AlignedRegion
- AlignmentChanged()
: SequenceTableView
, SequenceViewer
- AlignmentHandle()
: AlignmentHandle
- AlignmentOpts()
: AlignmentOpts
- alignments()
: QSscorer
- AlignmentViewObject()
: AlignmentViewObject
- AlignPropertiesPainter()
: AlignPropertiesPainter
- AllCleared()
: MessageWidget
- Alpha()
: Color
- AminoAcidSet()
: AminoAcidSet
- AminoAcidSetIterator()
: AminoAcidSetIterator
- AnisotropicFilter()
: AnisotropicFilter
- Append()
: SequenceImpl
, SequenceHandle
- AppendCode()
: TextLogger
- AppendColorOp()
: GfxObj
- AppendCommand()
: ShellHistory
- AppendCommandlineArgument()
: PythonInterpreter
- AppendError()
: PythonShellWidget
- AppendModulePath()
: PythonInterpreter
- AppendOutput()
: TextLogger
, PythonShellWidget
- AppendResidue()
: ChainImpl
, EditorBase
, ChainImpl
- Apply()
: Entity
, Rotation3
, Transform
, Entity
, GfxNode
, GfxObj
, ConnectRendererBase
, EntityRenderer
, TraceRendererBase
, Scene
, AtomHandle
, Surface
, Transformation
, CircleMask
, ConstData
, Data
, ExtentMask
, ImageHandle
, ConstImageHandle
, ImageList
, ImageStateBase
, TorsionHandle
, ImageStateBase
, EntityView
, ResidueImpl
, ImageStateImpl< T, D >
, TorsionImpl
, ImageStateImpl< T, D >
, InvertedMask
, EntityImpl
, NullData
, PolygonMask
, SphericalMask
, ChainImpl
, InfoGroup
, InfoHandle
, AtomView
, BondHandle
, EntityHandle
, ChainHandle
, ChainView
, EntityView
, AtomImpl
, BondHandle
, ConnectorImpl
, ImageHandle
, ResidueHandle
, ResidueView
, InfoHandle
, InfoGroup
, MaskBase
, ImageStateImpl< T, D >
, ImageStateBase
, ImageList
, ConnectRendererBase
, ImageHandle
, CompositeMask
, Selection
, TraceRendererBase
, EntityRenderer
- ApplyAxisRotation()
: Transform
- ApplyInverse()
: Transform
- ApplyIP()
: ImageList
, ImageStateImpl< T, D >
, ImageStateBase
, ConstImageHandle
, ImageHandle
, NullData
, ImageHandle
, ImageList
, ImageHandle
, Data
, ImageList
, ImageStateBase
, ImageStateImpl< T, D >
, ConstData
, ImageHandle
, ImageList
, ImageStateImpl< T, D >
- ApplyLBFGS()
: Simulation
- ApplyOn()
: VisibilityOp
, RenderOp
, Preset
- ApplyOnBuildingBlock()
: HydrogenConstructor
, GromacsBlockModifier
, HeuristicBlockModifier
, GromacsHydrogenConstructor
, TerminiConstructor
, BlockModifier
, HeuristicHydrogenConstructor
- ApplyOnResidue()
: GromacsHydrogenConstructor
, HeuristicHydrogenConstructor
, TerminiConstructor
, HydrogenConstructor
, GromacsBlockModifier
, BlockModifier
, HeuristicBlockModifier
- ApplyOptions()
: Entity
, RenderModeWidget
- ApplyRenderOptions()
: LineRenderOptions
, CPKRenderOptions
, CustomRenderOptions
, SlineRenderOptions
, CartoonRenderOptions
, TraceRenderOptions
, RenderOptions
- ApplySD()
: Simulation
- ApplyShiftToMask()
: MaskOverlay
- ApplyTo()
: UniformColorOp
, MapHandleColorOp
, ByElementColorOp
, BasicGradientColorOp
, EntityViewColorOp
, GradientLevelColorOp
, MapHandleColorOp
, ByChainColorOp
, ColorOp
- ApplyTransform()
: XCSEditor
, CoordSource
, XCSEditor
, EntityImpl
, CoordGroupHandle
- ApplyXAxisRotation()
: Transform
- ApplyXAxisTranslation()
: Transform
- ApplyYAxisRotation()
: Transform
- ApplyYAxisTranslation()
: Transform
- ApplyZAxisRotation()
: Transform
- ApplyZAxisTranslation()
: Transform
- AreResiduesConsecutive()
: Processor
- Argand()
: Argand
- As()
: ImageFormatBase
- AsBool()
: InfoItem
- AsFloat()
: InfoItem
- AsImage()
: SimilarityMatrix
- AsInt()
: InfoItem
- Assign()
: GenericPropContainerImpl
- AssignFFSpecificNames()
: Forcefield
- AssignGromacsNaming()
: Modeller
- AssignPDBNaming()
: Modeller
- AssignPreset()
: SubstWeightMatrix
- AssignSecondaryStructure()
: ChainHandle
, ChainImpl
- AssignSecStructure()
: MMCifReader
- AsString()
: ResNum
- AsVector()
: InfoItem
- At()
: Mat3
, Mat4
, Vec2
, Vec3
, Mat4
, Mat3
, Line2
- at()
: ProfileHandle
- At()
: Vec4
, Ellipse2
, Line3
, Vec3
, Point
, Plane
, Mat2
, Hyperbola2
, Point
, Vec4
- at()
: ProfileHandle
- At()
: Mat2
- AtAngle()
: Ellipse2
- AtEnd()
: ExtentIterator
, LineIterator
, IndexIterator
, RowSet< R >
, ShellHistory
, IndexIterator< D >
- Atom()
: Builder
- AtomBase()
: AtomBase
- AtomEntry()
: AtomEntry
- AtomGroupEntry()
: AtomGroupEntry
- AtomHandle()
: AtomHandle
- AtomImpl()
: AtomImpl
- AtomProp()
: AtomProp
- AtomSpec()
: AtomSpec
- AtomView()
: AtomView
- AtStart()
: ExtentIterator
, IndexIterator
- Attach()
: Observable
, OverlayManager
, SurfaceHandle
, SurfaceImpl
, SurfaceHandle
, ConstData
, NullData
, SurfaceImpl
, ConstImageHandle
, ImageHandle
- AttachGfxObject()
: SequenceViewObject
- AttachObserver()
: Scene
, SceneObserverImpl
, EntityHandle
, EntityImpl
- AttachRenderModeObserver()
: SceneWinModel
- AttachView()
: AlignmentHandle
, SequenceImpl
, AlignmentHandle
, SequenceHandle
, SequenceImpl
, SequenceHandle
- AutoAutoslab()
: Scene
- AutoCorrelateFnc()
: AutoCorrelateFnc
- AutomaticTransition()
: AutomaticTransition
- Autoslab()
: Scene
- AutoslabMax()
: Scene