Here is a list of all class members with links to the classes they belong to:

- a -

• a : BALL::PDB::RecordCRYST1::UnitCell , BALL::PDB::Structure::UnitCellInfo , BALL::BindingPocketProcessor::Sphere_
• A : BALL::Potential1210::Values
• a : BALL::SortedPosition2 , BALL::TSimpleBox3< T > , BALL::SortedPosition3
• A : BALL::LennardJones::Values
• a0 : BALL::Constant
• a1 : BALL::HybridisationProcessor::AtomNames_
• a2 : BALL::HybridisationProcessor::AtomNames_
• a3 : BALL::HybridisationProcessor::AtomNames_
• A_ : BALL::Pair6_12RDFIntegrator , BALL::StructureMapper
• a_ : BALL::FermiBaseFunction
• A_ : BALL::LennardJones , BALL::Potential1210
• A_B_FORMAT : BALL::LennardJones
• a_i_ : BALL::ConjugateGradientMinimizer
• A_STAR : BALL::AssignBondOrderProcessor::Algorithm
• abbreviation_common : BALL::NMRStarFile::MolecularSystem
• abonds : BALL::Kekuliser::AtomInfo
• abort() : BALL::DockingAlgorithm , BALL::VIEW::DownloadElectronDensity , BALL::VIEW::DownloadPDBFile
• ABORT : BALL::Processor
• abort_ : BALL::DockingAlgorithm , BALL::VIEW::DockingFinishedMessage
• abort_by_energy_enabled_ : BALL::MolecularDynamics , BALL::EnergyMinimizer
• abort_energy_ : BALL::EnergyMinimizer , BALL::MolecularDynamics
• abort_test : BALL::VIEW::TestFramework
• abortClicked() : BALL::VIEW::DockProgressDialog
• aborted_ : BALL::EnergyMinimizer , BALL::VIEW::DownloadElectronDensity , BALL::VIEW::DownloadPDBFile
• abortScript() : BALL::VIEW::PyWidget
• abortTest() : BALL::VIEW::TestFramework
• about() : BALL::Mainframe
• about_to_quit_ : BALL::VIEW::MainControl
• aboutToExit() : BALL::VIEW::MainControl
• ABSOLUTE_TEMPERATURE : BALL::NonpolarSolvation::Option , BALL::NonpolarSolvation::Default , BALL::PCMCavFreeEnergyProcessor::Option , BALL::PCMCavFreeEnergyProcessor::Default , BALL::PierottiCavFreeEnergyProcessor::Option , BALL::PierottiCavFreeEnergyProcessor::Default , BALL::ReissCavFreeEnergyProcessor::Option , BALL::ReissCavFreeEnergyProcessor::Default
• absolute_temperature_ : BALL::NonpolarSolvation
• Ac : BALL::Element
• ac : BALL::AssignBondOrderProcessor::Solution_
• ac_ : BALL::GeneralizedBornModel , BALL::AssignBondOrderProcessor , BALL::VIEW::FieldLineCreator
• ac_split_() : BALL::AntechamberFile
• accept() : BALL::VIEW::EditSingleShortcut , BALL::VIEW::ExportGeometryDialog , BALL::VIEW::FDPBDialog , BALL::VIEW::FieldLinesDialog , BALL::VIEW::GeometricFitDialog , BALL::VIEW::GridVisualizationDialog , BALL::VIEW::LabelDialog , BALL::VIEW::MinimizationDialog , BALL::VIEW::MMFF94ConfigurationDialog , BALL::VIEW::ModifyRepresentationDialog , BALL::VIEW::MolecularDynamicsDialog , BALL::VIEW::RaytraceableContourSurfaceDialog , BALL::VIEW::RunGAMESSDialog , BALL::VIEW::AmberConfigurationDialog , BALL::VIEW::AssignBondOrderConfigurationDialog , BALL::VIEW::AtomOverview , BALL::VIEW::CharmmConfigurationDialog , BALL::VIEW::ClippingDialog , BALL::VIEW::CompositeProperties
• acceptCombinedDatapoints() : BALL::MPISupport
• acceptDatapoints() : BALL::MPISupport
• acceptor_ : BALL::HBondProcessor::HBond , BALL::TCPServer
• acceptor_occupied_ : BALL::HBondShiftProcessor
• acceptor_types_ : BALL::HBondShiftProcessor
• acceptors_ : BALL::HBondShiftProcessor , BALL::HBondProcessor
• accession_code : BALL::NMRStarFile::MonomericPolymer::HomologDB , BALL::NMRStarFile::MolecularSystem::RelatedDB
• acidic_color_ : BALL::VIEW::ResidueTypeColorProcessor
• ACTINIUM : BALL::Element
• action : BALL::VIEW::Hotkey
• action1_ : BALL::VIEW::PubChemDialog
• action2_ : BALL::VIEW::PubChemDialog
• action_ : BALL::VIEW::UndoManagerDialog , BALL::VIEW::DockingController , BALL::VIEW::TestFramework
• actions_ : BALL::VIEW::DatasetController
• actions_for_one_set_ : BALL::VIEW::DatasetController
• activate() : BALL::BALLPlugin , BALL::TCPServer , BALL::VIEW::ServerWidget
• activate_async() : BALL::TCPServerThread
• activated_item_ : BALL::VIEW::AssignBondOrderResultsDialog
• activatedItem_() : BALL::VIEW::MolecularControl
• activatedOrderItem_() : BALL::VIEW::EditableScene
• active_ : BALL::VIEW::ClippingPlane
• active_index_ : BALL::VIEW::PluginDialog
• ACTIVE_STEREO : BALL::VIEW::GLRenderer
• active_stereo_action_ : BALL::VIEW::Scene
• activities : BALL::QSAR::InputConfiguration
• adapt_char_ : BALL::TRRFile
• adapt_double_ : BALL::TRRFile
• adapt_float_ : BALL::DCDFile , BALL::TRRFile
• adapt_size_ : BALL::DCDFile , BALL::TRRFile
• add() : BALL::ConformationSet , BALL::SmartsMatcher::RecStruct_ , BALL::VIEW::RaytraceableContourSurfaceDialog
• ADD : BALL::FragmentDB::NormalizeNamesProcessor , BALL::VIEW::DatasetMessage , BALL::VIEW::RepresentationMessage
• add_button_ : BALL::VIEW::PubChemDialog
• ADD_CHAIN_RESIDUE_ID : BALL::Atom
• ADD_HBONDS : BALL::HBondProcessor::Option , BALL::HBondProcessor::Default
• ADD_HYDROGENS : BALL::AssignBondOrderProcessor::Option , BALL::AssignBondOrderProcessor::Default , BALL::VIEW::MolecularTaskMessage
• add_hydrogens : BALL::FragmentDB
• add_hydrogens_action_ : BALL::VIEW::EditableScene
• add_hydrogens_id_ : BALL::VIEW::MolecularStructure
• add_missing_hydrogens_ : BALL::AssignBondOrderProcessor
• ADD_RESIDUE_ID : BALL::Atom , BALL::Residue
• ADD_TO_GEOMETRIC_CONTROL : BALL::VIEW::RepresentationMessage
• ADD_VARIANT_EXTENSIONS : BALL::Atom , BALL::Residue
• ADD_VARIANT_EXTENSIONS_AND_CHAIN_RESIDUE_ID : BALL::Atom
• ADD_VARIANT_EXTENSIONS_AND_ID : BALL::Atom , BALL::Residue
• addAlgorithm() : BALL::VIEW::DockDialog
• addAllRecords_() : BALL::PDBFile
• addAminoAcid() : BALL::Peptides::PeptideBuilder
• addAtom() : BALL::VIEW::AtomDistanceColorProcessor
• AddBackboneModel() : BALL::VIEW::AddBackboneModel
• AddBallAndStickModel() : BALL::VIEW::AddBallAndStickModel
• addBasisOption() : BALL::GAMESSLogFile
• AddCartoonModel() : BALL::VIEW::AddCartoonModel
• addCESelementConnectionPredicate() : BALL::GAFFCESParser::CESPredicate
• addCESelementPredicate() : BALL::GAFFCESParser::CESPredicate
• addCESwildcardsConnectionPredicate() : BALL::GAFFCESParser::CESPredicate
• addCESwildcardsPredicate() : BALL::GAFFCESParser::CESPredicate
• addChild() : BALL::ConnectedToPredicate::CTPNode
• addCoefficient() : BALL::GAMESSLogFile
• addComponent() : BALL::ComposedEnergyProcessor
• addComposite() : BALL::VIEW::MolecularControl
• addComposite_() : BALL::VIEW::MolecularStructure
• addDataItem() : BALL::CIFFile::SaveFrame
• addDataPath() : BALL::Path
• AddDV3_() : BALL::MMFF94OutOfPlaneBend , BALL::MMFF94StretchBend , BALL::MMFF94Torsion
• ADDED__ATOM : BALL::VIEW::EditableScene::EditOperation
• ADDED__BOND : BALL::VIEW::EditableScene::EditOperation
• addEdge() : BALL::SmartsParser
• addEditOperation() : BALL::VIEW::EditOperationDialog
• addEmptyRow() : BALL::VIEW::HotkeyTable
• addEntry() : BALL::QSAR::Registry
• addGlWindow() : BALL::VIEW::Scene
• addHydrogen_() : BALL::AddHydrogenProcessor
• AddHydrogenProcessor() : BALL::AddHydrogenProcessor
• addHydrogens() : BALL::VIEW::MolecularStructure
• addItem_() : BALL::VIEW::GeometricControl
• Addition() : BALL::Addition< First, Second, DataType >
• additional_grid_distance_ : BALL::VIEW::ColorProcessor
• AdditionalAtomInfo() : BALL::PDB::AdditionalAtomInfo
• addLambda() : BALL::QSAR::Model
• addLightPressed() : BALL::VIEW::LightSettings
• addLightSource() : BALL::VIEW::Stage
• AddLineModel() : BALL::VIEW::AddLineModel
• addMissingHydrogens() : BALL::SmilesParser
• addModel_() : BALL::VIEW::RaytraceableContourSurfaceDialog
• addModularWidget() : BALL::VIEW::MainControl
• addMonomericPolymer() : BALL::NMRStarFile
• addMovable_() : BALL::ResidueRotamerSet
• addNeededObjects_() : BALL::PersistenceManager
• addNewAND() : BALL::GAFFCESParser::CESPredicate
• addNewFragment_() : BALL::FragmentDB
• addNewOR() : BALL::GAFFCESParser::CESPredicate
• addNode() : BALL::SmartsParser
• addPair() : BALL::CIFFile::Item
• addPluginDirectory() : BALL::PluginManager , BALL::VIEW::PluginDialog
• addPointerPair_() : BALL::PersistenceManager
• addPropertiesFromSPAtom() : BALL::SmartsParser::SPAtom
• addRecursiveEdge() : BALL::SmartsParser
• addRepresentation() : BALL::VIEW::GeometricControl
• addRingConnection() : BALL::SmartsParser
• addRotamer() : BALL::ResidueRotamerSet , BALL::RotamerLibrary
• addRow() : BALL::VIEW::GenericControl
• addScoring() : BALL::DockResult
• addScoringFunction() : BALL::VIEW::DockDialog , BALL::VIEW::DockResultDialog
• addSolutionToStructures() : BALL::VIEW::AssignBondOrderResultsDialog
• addSolvent() : BALL::PeriodicBoundary
• addSPEdge() : BALL::SmartsParser::SPNode
• addSphere_s_() : BALL::BindingPocketProcessor
• addStructure() : BALL::VIEW::EditableScene
• addStructure_() : BALL::VIEW::EditableScene
• AddSurfaceModel() : BALL::VIEW::AddSurfaceModel
• addTag() : BALL::CIFFile::Item , BALL::VIEW::LabelDialog
• addToolBarEntries() : BALL::VIEW::ModularWidget , BALL::VIEW::EditableScene , BALL::VIEW::Scene
• addTriangles_() : BALL::TContourSurface< T >
• addTruePredicate() : BALL::GAFFCESParser::CESPredicate
• addValue() : BALL::CIFFile::Item
• AddVanDerWaalsModel() : BALL::VIEW::AddVanDerWaalsModel
• addVariants() : BALL::Enumerator< Container, SiteIterator, Variant >
• ADENINE : BALL::DNAMutator
• adjacent_edges_ : BALL::NodeItem< Node, Edge >
• advanced_options_modified_ : BALL::VIEW::DisplayProperties
• advancedClicked() : BALL::VIEW::DockResultDialog
• advancedOptions() : BALL::VIEW::MinimizationDialog , BALL::VIEW::MolecularDynamicsDialog
• after() : BALL::String
• Ag : BALL::Element
• ai : BALL::MMFF94VDWParameters::VDWEntry
• Aij_ : BALL::LennardJones
• Al : BALL::Element
• AL : BALL::SmilesParser
• ala_pressed() : BALL::VIEW::PeptideDialog
• alg_ : BALL::VIEW::DockProgressDialog
• algAdvancedPressed() : BALL::VIEW::DockDialog
• Algorithm : BALL::VIEW::DockingController
• ALGORITHM : BALL::AssignBondOrderProcessor::Option , BALL::AssignBondOrderProcessor::Default
• ALGORITHM__DATABASE : BALL::RotationalEntropyLoss
• ALGORITHM__GUESS : BALL::RotationalEntropyLoss
• algorithm_dialogs_ : BALL::VIEW::DockDialog
• ALGORITHM_NAME : BALL::RingPerceptionProcessor::Option , BALL::RingPerceptionProcessor::Default
• algorithm_opt_ : BALL::VIEW::DockDialog
• algorithm_type_ : BALL::AmberNonBonded , BALL::CharmmNonBonded , BALL::MMFF94NonBonded , BALL::RotationalEntropyLoss
• algorithmChosen() : BALL::VIEW::DockDialog
• AlgorithmType : BALL::RotationalEntropyLoss
• ALIPHATIC : BALL::SmartsParser::SPAtom
• all_amino_acids_ : BALL::VIEW::PeptideDialog
• all_aromatic_atoms_ : BALL::Kekuliser
• all_aromatic_rings_ : BALL::CHPI
• ALL_ATOMS : BALL::VIEW::LabelModel
• all_atoms_ : BALL::SmilesParser
• all_CH_groups_ : BALL::CHPI
• all_fragments_ : BALL::FragmentDistanceCollector
• all_hydrogen_are_targets_ : BALL::HaighMallionShiftProcessor
• ALL_ITEMS : BALL::VIEW::LabelModel
• all_names_ : BALL::VIEW::GLRenderer
• ALL_RESIDUES : BALL::VIEW::LabelModel
• all_small_beers_ : BALL::RingPerceptionProcessor
• all_small_rings_ : BALL::RingPerceptionProcessor
• all_torsions_ : BALL::ResidueTorsions
• allDiffEquations_ : BALL::QSAR::FitModel
• allEquations_ : BALL::QSAR::FitModel
• ALLModel() : BALL::QSAR::ALLModel
• allowed_sf_ : BALL::VIEW::DockDialog
• ALPHA : BALL::VersionInfo , BALL::RegularExpression , BALL::PairExpInteractionEnergyProcessor::Option , BALL::PairExpInteractionEnergyProcessor::Default
• alpha : BALL::PDB::RecordCRYST1::UnitCell , BALL::PDB::Structure::UnitCellInfo , BALL::AssignBondOrderProcessor::PQ_Entry_
• alpha_ : BALL::CCP4File , BALL::DSN6File , BALL::LineSearch , BALL::PairExpInteractionEnergyProcessor , BALL::PairExpRDFIntegrator , BALL::AssignBondOrderProcessor , BALL::VIEW::ColorRGBA , BALL::CrystalInfo
• alpha_blending_ : BALL::VIEW::ColorMap
• ALPHA_CHANNEL : BALL::VIEW::ChannelFormat
• alpha_i : BALL::MMFF94VDWParameters::VDWEntry
• alpha_proton_oxygen_hydrogen_separation_distance_ : BALL::HBondShiftProcessor
• ALPHA_PROTON_OXYGEN_SEPARATION_DISTANCE : BALL::HBondProcessor
• ALPHANUMERIC : BALL::RegularExpression
• already_used_ : BALL::HydrogenBond
• alreadySeenThisAtom() : BALL::GAFFCESParser::CESPredicate
• alternate_location_indicator : BALL::PDB::RecordANISOU , BALL::PDB::RecordATOM , BALL::PDB::RecordHETATM , BALL::PDB::RecordHYDBND::HydrogenPartnerAtom , BALL::PDB::RecordHYDBND::HydrogenAtom , BALL::PDB::RecordLINK::LinkPartner , BALL::PDB::RecordSIGATM , BALL::PDB::RecordSIGUIJ , BALL::PDB::RecordSLTBRG::PartnerAtom
• alternate_location_indicator_ : BALL::PDBFile , BALL::PDBAtom
• ALUMINUM : BALL::Element
• Am : BALL::Element
• amber_ : BALL::VIEW::AmberConfigurationDialog , BALL::VIEW::MolecularStructure
• amber_dialog_ : BALL::VIEW::MinimizationDialog , BALL::VIEW::MolecularDynamicsDialog , BALL::VIEW::MolecularStructure
• AMBER_FF : BALL::VIEW::DockingController , BALL::VIEW::MolecularStructure
• amber_ff_id_ : BALL::VIEW::MolecularStructure
• AmberBend() : BALL::AmberBend
• AmberConfigurationDialog() : BALL::VIEW::AmberConfigurationDialog
• AmberEvaluation() : BALL::AmberEvaluation
• AmberFF() : BALL::AmberFF
• AmberNonBonded() : BALL::AmberNonBonded
• AmberStretch() : BALL::AmberStretch
• AmberTorsion() : BALL::AmberTorsion
• AMBIENT : BALL::VIEW::LightSource
• ambient_ : BALL::VIEW::Stage
• ambient_color : BALL::VIEW::Stage::RaytracingMaterial
• ambient_intensity : BALL::VIEW::Stage::RaytracingMaterial
• ambientFactorChanged() : BALL::VIEW::MaterialSettings
• ambiguity_code : BALL::NMRStarFile::NMRAtomData , BALL::NMRAtomData
• AMERICIUM : BALL::Element
• amide_proton_factor_ : BALL::HBondShiftProcessor
• amide_proton_oxygen_hydrogen_separation_distance_ : BALL::HBondShiftProcessor
• AMIDE_PROTON_OXYGEN_SEPARATION_DISTANCE : BALL::HBondProcessor
• amide_proton_subtrahend_ : BALL::HBondShiftProcessor
• amide_protons_are_targets_ : BALL::HBondShiftProcessor
• AminoAcidDescriptor() : BALL::Peptides::AminoAcidDescriptor
• analyticallyIntegrateInterval() : BALL::Pair6_12RDFIntegrator
• ancestor_ : BALL::Composite::AncestorIteratorTraits
• AncestorConstIterator : BALL::Composite
• AncestorIterator : BALL::Composite
• AncestorIteratorTraits : BALL::Composite , BALL::Composite::AncestorIteratorTraits
• AND : BALL::ExpressionTree , BALL::SmartsParser
• AND_LOW : BALL::SmartsParser
• ang_num_ : BALL::GeometricFit::RotationAngles_
• angle : BALL::MMFF94Torsion::Torsion
• angle_ : BALL::RSEdge , BALL::SASEdge , BALL::VIEW::LightSource
• angle_action_ : BALL::VIEW::MolecularControl
• angle_changed() : BALL::VIEW::PeptideDialog
• angle_measure : BALL::PDB::RecordCISPEP
• ANGLE_TOLERANCE : BALL::CHPI::Option , BALL::CHPI::Default
• angle_tolerance_ : BALL::AromaticRingStacking , BALL::CHPI
• animate_() : BALL::VIEW::Scene
• animateClicked() : BALL::VIEW::SnapshotVisualisationDialog
• animation_export_PNG_action_ : BALL::VIEW::Scene
• animation_export_POV_action_ : BALL::VIEW::Scene
• animation_export_VRML_action_ : BALL::VIEW::Scene
• animation_points_ : BALL::VIEW::Scene
• animation_repeat_action_ : BALL::VIEW::Scene
• animation_running_ : BALL::VIEW::SnapshotVisualisationDialog
• animation_smoothness_ : BALL::VIEW::Scene
• animation_thread_ : BALL::VIEW::Scene
• animationSpeedChanged() : BALL::VIEW::SnapshotVisualisationDialog
• AnimationThread : BALL::VIEW::Scene , BALL::VIEW::AnimationThread
• anion : BALL::MMFF94AtomTyper::AromaticType
• AnisotropyShiftProcessor() : BALL::AnisotropyShiftProcessor
• annotateAliphaticAndAromaticRingAtoms_() : BALL::GAFFTypeProcessor
• annotateBondTypes_() : BALL::GAFFTypeProcessor
• annotatePlanarRingAtoms_() : BALL::GAFFTypeProcessor
• annotateRingSizes_() : BALL::GAFFTypeProcessor
• AntechamberFile() : BALL::AntechamberFile
• ANTIMONY : BALL::Element
• ANY : BALL::SmartsParser::SPBond
• ANY_TYPE : BALL::Atom
• ANY_ZE : BALL::SmartsParser
• append() : BALL::DCDFile , BALL::TrajectoryFile , BALL::TRRFile , BALL::AtomContainer , BALL::Chain , BALL::Molecule , BALL::Nucleotide , BALL::Residue , BALL::SecondaryStructure , BALL::System
• appendChild() : BALL::Composite , BALL::ExpressionTree
• appendHotkey() : BALL::VIEW::HotkeyTable
• appendIconPath() : BALL::VIEW::IconLoader
• appendLine() : BALL::INIFile
• appendSection() : BALL::INIFile
• appendText() : BALL::VIEW::PyWidget
• appendText_() : BALL::VIEW::PyWidget
• appendToHistory_() : BALL::VIEW::PyWidget
• applied() : BALL::VIEW::Preferences
• apply() : BALL::HashSet< Key > , BALL::VIEW::DisplayProperties , BALL::ResourceFile , BALL::Composite , BALL::TContour< T > , BALL::HashGridBox3< Item > , BALL::HashGrid3< Item > , BALL::List< Value > , BALL::INIFile , BALL::ResourceEntry , BALL::PTE_ , BALL::ElectrostaticPotentialCalculator , BALL::AssignBondOrderProcessor , BALL::VIEW::LightSettings , BALL::VIEW::MaterialSettings , BALL::VIEW::StageSettings , BALL::VIEW::StereoSettingsDialog
• apply_() : BALL::AssignBondOrderProcessor
• APPLY_FIRST_SOLUTION : BALL::AssignBondOrderProcessor::Option , BALL::AssignBondOrderProcessor::Default
• apply_processor_ : BALL::VIEW::AtomOverview
• applyAncestor() : BALL::Composite
• applyBonds() : BALL::Atom
• applyChild() : BALL::Composite
• applyChildNostart_() : BALL::Composite
• applyChildren() : BALL::ResourceEntry , BALL::ResourceFile
• applyColoringSettings_() : BALL::VIEW::DisplayProperties
• applyDescendant() : BALL::Composite
• applyDescendantPostorder() : BALL::Composite
• applyDescendantPostorderNostart_() : BALL::Composite
• applyDescendantPreorder() : BALL::Composite
• applyDescendantPreorderNostart_() : BALL::Composite
• applyFirstSnapShot() : BALL::SnapShotManager
• applyForceFieldSettings_() : BALL::VIEW::MolecularStructure
• applyInterBond() : BALL::AtomContainer
• applyIntraBond() : BALL::AtomContainer
• applyLastSnapShot() : BALL::SnapShotManager
• applyLevel() : BALL::Composite
• applyLevelNostart_() : BALL::Composite
• applyModelSettings_() : BALL::VIEW::DisplayProperties
• applyNextSnapShot() : BALL::SnapShotManager
• applyNostart_() : BALL::ResourceEntry
• applyPostorder() : BALL::Composite
• applyPreferences() : BALL::VIEW::Preferences , BALL::VIEW::MainControl , BALL::VIEW::ModularWidget , BALL::VIEW::ServerWidget , BALL::VIEW::EditableScene , BALL::VIEW::PyWidget , BALL::VIEW::Scene , BALL::VIEW::DisplayProperties
• applyPreferencesClicked_() : BALL::VIEW::MainControl
• applyPreorder() : BALL::Composite
• applyPreorderNostart_() : BALL::Composite
• ApplyProcessor() : BALL::VIEW::AtomOverview::ApplyProcessor
• applyProcessors_() : BALL::VIEW::DockDialog , BALL::VIEW::FDPBDialog
• applySelector() : BALL::VIEW::MolecularControl
• applySettings() : BALL::VIEW::NetworkPreferences
• applySettingsTo() : BALL::VIEW::ColoringSettingsDialog , BALL::VIEW::ModelSettingsDialog
• applySnapshot() : BALL::VIEW::SnapshotManagerInterface
• applySnapShot() : BALL::SnapShot , BALL::SnapShotManager
• applySolution_() : BALL::Kekuliser
• applySplit() : BALL::VIEW::ModifyRepresentationDialog
• applyTo() : BALL::VIEW::AmberConfigurationDialog , BALL::VIEW::CharmmConfigurationDialog , BALL::VIEW::MMFF94ConfigurationDialog
• applyTo_() : BALL::VIEW::DisplayProperties
• applyValues_() : BALL::VIEW::DockDialog , BALL::VIEW::FDPBDialog
• aps_matcher : BALL::GAFFCESParser::CESPredicate
• aps_terms : BALL::GAFFCESParser::APSMatcher
• APS_TRUE : BALL::GAFFCESParser::APSMatcher
• APSMatcher() : BALL::GAFFCESParser::APSMatcher
• APSTerm() : BALL::GAFFCESParser::APSMatcher::APSTerm
• APSType : BALL::GAFFCESParser::APSMatcher
• Ar : BALL::Element
• areInOneAromaticRing() : BALL::MMFF94
• areInOneRing() : BALL::MMFF94
• arg_pressed() : BALL::VIEW::PeptideDialog
• ARGENTUM : BALL::Element
• ARGON : BALL::Element
• argument : BALL::ExpressionParser::SyntaxTree
• argument_ : BALL::ExpressionPredicate
• argument_pointer : BALL::UnaryFunctor< ArgumentType, ResultType >
• argument_reference : BALL::UnaryFunctor< ArgumentType, ResultType >
• argument_type : BALL::UnaryFunctor< ArgumentType, ResultType >
• arom : BALL::MMFF94AtomType
• arom_proc_ : BALL::SMARTSPredicate
• aromat_list_ : BALL::JohnsonBoveyShiftProcessor
• AROMATIC : BALL::SmartsParser::SPBond , BALL::SmartsParser::SPAtom
• aromatic_atoms_ : BALL::Kekuliser
• AROMATIC_BOND : BALL::GAFFCESParser::APSMatcher
• AROMATIC_BOND_TO_PARENT : BALL::GAFFCESParser::APSMatcher
• aromatic_bonds_ : BALL::MMFF94
• aromatic_color_ : BALL::VIEW::ResidueTypeColorProcessor
• aromatic_rings_ : BALL::MMFF94 , BALL::MMFF94ChargeProcessor , BALL::Kekuliser , BALL::AtomTyper
• aromatic_systems_ : BALL::Kekuliser
• aromatic_types_5_map_ : BALL::MMFF94AtomTyper
• AromaticityProcessor() : BALL::AromaticityProcessor
• AromaticRing() : BALL::CHPI::AromaticRing
• AromaticRingStacking() : BALL::AromaticRingStacking
• aromatize() : BALL::AromaticityProcessor
• aromatizeSimple() : BALL::AromaticityProcessor
• arrangeBonds_() : BALL::Bond
• ARRAY : BALL::JCAMPFile
• arrow_width_ : BALL::VIEW::AddCartoonModel
• ARSENIC : BALL::Element
• As : BALL::Element
• asn_pressed() : BALL::VIEW::PeptideDialog
• asp_pressed() : BALL::VIEW::PeptideDialog
• ASP_SEPERATION : BALL::BindingPocketProcessor::Option , BALL::BindingPocketProcessor::Default
• aspec : BALL::MMFF94AtomType
• asps_ : BALL::BindingPocketProcessor
• ASSEMBLED : BALL::SDGenerator
• assembleSD_() : BALL::SDGenerator
• assign() : BALL::Templates
• assign_bond_orders_id_ : BALL::VIEW::MolecularStructure
• ASSIGN_CHARGES : BALL::AmberFF::Option , BALL::AmberFF::Default , BALL::CharmmFF::Option , BALL::MMFF94::Option , BALL::MMFF94::Default , BALL::CharmmFF::Default
• assign_charges_id_ : BALL::VIEW::MolecularStructure
• ASSIGN_TYPENAMES : BALL::AmberFF::Default , BALL::CharmmFF::Option , BALL::CharmmFF::Default , BALL::MMFF94::Default , BALL::MMFF94::Option , BALL::AmberFF::Option
• ASSIGN_TYPES : BALL::MMFF94::Default , BALL::CharmmFF::Option , BALL::AmberFF::Default , BALL::AmberFF::Option , BALL::CharmmFF::Default , BALL::MMFF94::Option
• assignAromaticType_5_() : BALL::MMFF94AtomTyper
• assignAtomtype_() : BALL::GAFFTypeProcessor
• assignBackboneAtoms() : BALL::AtomBijection
• AssignBaseProcessor() : BALL::AssignBaseProcessor
• AssignBondOrderConfigurationDialog() : BALL::VIEW::AssignBondOrderConfigurationDialog
• AssignBondOrderProcessor() : BALL::AssignBondOrderProcessor , BALL::AssignBondOrderProcessor::Solution_ , BALL::AssignBondOrderProcessor::PQ_Entry_ , BALL::AssignBondOrderProcessor
• AssignBondOrderResultsDialog() : BALL::VIEW::AssignBondOrderResultsDialog
• assignBondTypes_() : BALL::MMFF94
• assignByName() : BALL::AtomBijection
• assignCAlphaAtoms() : BALL::AtomBijection
• AssignChargeProcessor() : BALL::AssignChargeProcessor
• assignCharges() : BALL::Templates
• assignFormalCharge() : BALL::MMFF94ChargeProcessor
• ASSIGNMENT__ELDRIDGE : BALL::FresnoTypes
• ASSIGNMENT__FRESNO : BALL::FresnoTypes
• assignMMFF94BondType() : BALL::MMFF94
• assignModelType() : BALL::VIEW::AddCartoonModel , BALL::VIEW::AddBackboneModel
• assignNucleotideAtoms_() : BALL::VIEW::AddCartoonModel
• assignParameters() : BALL::QuadraticImproperTorsion , BALL::QuadraticBondStretch , BALL::MMFF94PlaneParameters , BALL::MMFF94TorsionParameters , BALL::MMFF94StretchParameters , BALL::MMFF94StretchBendParameters , BALL::CharmmEEF1 , BALL::LennardJones , BALL::QuadraticAngleBend , BALL::MMFF94BendParameters , BALL::MMFF94VDWParameters , BALL::Potential1210 , BALL::CosineTorsion
• assignPartialCharges_() : BALL::MMFF94ChargeProcessor
• AssignRadiusProcessor() : BALL::AssignRadiusProcessor
• assignRTD_() : BALL::RingAnalyser
• assignShifts() : BALL::NMRStarFile
• assignShifts_() : BALL::NMRStarFile
• assignSpecificValues_() : BALL::AtomTyper
• assignTo() : BALL::AtomTyper , BALL::MMFF94AtomTyper , BALL::AtomTyper
• assignTorsion() : BALL::ResidueTorsions
• assignTrivial() : BALL::AtomBijection
• AssignTypeNameProcessor() : BALL::AssignTypeNameProcessor
• assignTypeNames() : BALL::Templates
• AssignTypeProcessor() : BALL::AssignTypeProcessor
• ASTATINE : BALL::Element
• ASU : BALL::CrystalGenerator
• asu_ : BALL::CrystalGenerator
• At : BALL::Element
• at() : BALL::PDBRecords
• ATIJK : BALL::MMFF94StretchBend::Bend
• Atom : BALL::Bond , BALL::Atom
• atom : BALL::PDB::Structure::AtomEntry , BALL::FragmentDB::BuildBondsProcessor::Connection , BALL::CharmmEEF1::Data
• Atom() : BALL::Atom
• atom : BALL::VIEW::EditableScene::EditOperation , BALL::Kekuliser::AtomInfo
• Atom() : BALL::Atom
• atom1 : BALL::MMFF94StretchBend::Bend , BALL::AmberTorsion::SingleAmberTorsion , BALL::CharmmTorsion::SingleCharmmTorsion , BALL::MMFF94Torsion::Torsion , BALL::Potential1210::Data , BALL::QuadraticBondStretch::Data , BALL::CosineTorsion::SingleData , BALL::LennardJones::Data , BALL::MOL2File::BondStruct , BALL::QuadraticAngleBend::Data , BALL::QuadraticImproperTorsion::Data , BALL::CosineTorsion::Data , BALL::MMFF94StretchBend::Stretch
• atom2 : BALL::QuadraticAngleBend::Data , BALL::Potential1210::Data , BALL::MOL2File::BondStruct , BALL::MMFF94StretchBend::Stretch , BALL::MMFF94Torsion::Torsion , BALL::CosineTorsion::Data , BALL::LennardJones::Data , BALL::QuadraticImproperTorsion::Data , BALL::QuadraticBondStretch::Data , BALL::CosineTorsion::SingleData , BALL::AmberTorsion::SingleAmberTorsion , BALL::CharmmTorsion::SingleCharmmTorsion , BALL::MMFF94StretchBend::Bend
• atom3 : BALL::CharmmTorsion::SingleCharmmTorsion , BALL::MMFF94Torsion::Torsion , BALL::QuadraticImproperTorsion::Data , BALL::CosineTorsion::Data , BALL::CosineTorsion::SingleData , BALL::QuadraticAngleBend::Data , BALL::AmberTorsion::SingleAmberTorsion , BALL::MMFF94StretchBend::Bend
• atom4 : BALL::CosineTorsion::SingleData , BALL::CharmmTorsion::SingleCharmmTorsion , BALL::QuadraticImproperTorsion::Data , BALL::AmberTorsion::SingleAmberTorsion , BALL::CosineTorsion::Data , BALL::MMFF94Torsion::Torsion
• atom_ : BALL::NodeItem< Node, Edge > , BALL::RSVertex , BALL::SmartsParser::SPAtom , BALL::VIEW::BondProperties , BALL::ReducedSurface , BALL::SESVertex , BALL::Peak< PositionType >
• atom_2_distance_ : BALL::VIEW::AtomDistanceColorProcessor
• atom_areas_ : BALL::NumericalSAS
• atom_array : BALL::FDPB
• atom_data : BALL::NMRAtomDataSet , BALL::NMRStarFile::NMRAtomDataSet
• atom_data_sets_ : BALL::NMRStarFile
• atom_distance_ : BALL::VIEW::FieldLineCreator
• ATOM_EXACT_CHANGE : BALL::MOLFile::Property
• atom_forces_ : BALL::SnapShot
• atom_format_ : BALL::MOLFile
• atom_grid_ : BALL::VIEW::ColorProcessor
• ATOM_GROUP : BALL::NMRStarFile
• atom_group : BALL::ShiftReferenceElement , BALL::NMRStarFile::ShiftReferenceElement
• ATOM_H0_DESIGNATOR : BALL::MOLFile::Property
• ATOM_HYDROGEN_COUNT : BALL::MOLFile::Property
• atom_ID : BALL::NMRAtomData , BALL::NMRStarFile::NMRAtomData
• atom_infos_ : BALL::Kekuliser
• ATOM_INVERSION_RETENTION : BALL::MOLFile::Property
• atom_list_ : BALL::JohnsonBoveyShiftProcessor
• atom_map_ : BALL::PDBFile
• ATOM_MASS_DIFFERENCE : BALL::MOLFile::Property
• atom_name : BALL::NMRAtomData , BALL::NMRStarFile::NMRAtomData , BALL::PDB::RecordHYDBND::HydrogenAtom , BALL::PDB::RecordHYDBND::HydrogenPartnerAtom , BALL::PDB::RecordHETATM , BALL::PDB::RecordANISOU , BALL::PDB::RecordLINK::LinkPartner , BALL::PDB::RecordSIGUIJ , BALL::PDB::RecordSLTBRG::PartnerAtom , BALL::PDB::RecordSIGATM , BALL::PDB::RecordATOM
• atom_name_A : BALL::ResidueTorsions::Data
• atom_name_B : BALL::ResidueTorsions::Data
• atom_name_C : BALL::ResidueTorsions::Data
• atom_name_D : BALL::ResidueTorsions::Data
• atom_name_in_current_strand : BALL::PDB::RecordSHEET
• atom_name_in_previous_strand : BALL::PDB::RecordSHEET
• atom_names : BALL::JohnsonBoveyShiftProcessor::Ring
• atom_nr_ : BALL::AddHydrogenProcessor
• atom_number_ : BALL::VIEW::EditableScene
• atom_overview_ : BALL::VIEW::MolecularControl
• atom_overview_selection_ : BALL::VIEW::MolecularControl
• atom_pair_vector_ : BALL::MMFF94NonBonded
• atom_pos_ : BALL::VIEW::EditableScene
• atom_positions_ : BALL::SnapShot
• ATOM_REACTION_COMPONENT_NUMBER : BALL::MOLFile::Property
• ATOM_REACTION_COMPONENT_TYPE : BALL::MOLFile::Property
• atom_serial_number : BALL::PDB::RecordCONECT
• atom_set_ : BALL::VIEW::AtomBondModelBaseProcessor
• atom_status_ : BALL::RSComputer
• ATOM_STEREO_CARE_BOX : BALL::MOLFile::Property
• atom_surface_map_ : BALL::NumericalSAS
• atom_surfaces_ : BALL::NumericalSAS
• atom_to_block_ : BALL::AssignBondOrderProcessor
• atom_to_node_ : BALL::TMolecularGraph< Node, Edge >
• atom_to_test : BALL::GAFFCESParser::CESPredicate
• atom_to_tnode_ : BALL::RingPerceptionProcessor
• atom_to_virtual_bond_index_ : BALL::AssignBondOrderProcessor
• atom_type : BALL::NMRStarFile::NMRAtomData , BALL::GAFFTypeProcessor::TypeDefinition
• ATOM_TYPE : BALL::NMRStarFile
• atom_type : BALL::NMRStarFile::ShiftReferenceElement , BALL::NMRAtomData , BALL::NMRStarFile::ShiftReferenceElement , BALL::ShiftReferenceElement
• ATOM_TYPE_FF_FILENAME : BALL::HybridisationProcessor::Option , BALL::HybridisationProcessor::Default
• ATOM_TYPE_FILE : BALL::NonpolarSolvation::Option , BALL::NonpolarSolvation::Default
• atom_type_normalization_factor : BALL::AssignBondOrderProcessor::PQ_Entry_
• atom_type_normalization_factor_ : BALL::AssignBondOrderProcessor
• atom_type_penalty : BALL::AssignBondOrderProcessor::Solution_
• atom_type_smarts_ : BALL::HybridisationProcessor
• ATOM_TYPE_SMARTS_FILENAME : BALL::HybridisationProcessor::Option , BALL::HybridisationProcessor::Default
• atom_typer_ : BALL::MMFF94
• atom_types_ : BALL::MMFF94 , BALL::AssignTypeProcessor , BALL::ForceFieldParameters , BALL::MMFF94AtomTyper , BALL::GAFFTypeProcessor , BALL::SolventParameter
• ATOM_VALENCE : BALL::MOLFile::Property
• atom_vector_ : BALL::MolecularDynamics
• atom_velocities_ : BALL::SnapShot
• atom_volumes_ : BALL::NumericalSAS
• AtomBijection() : BALL::AtomBijection
• AtomBondModelBaseProcessor() : BALL::VIEW::AtomBondModelBaseProcessor
• AtomBox : BALL::VIEW::ModifyRepresentationDialog , BALL::VIEW::ColorProcessor
• AtomChargeColorProcessor() : BALL::VIEW::AtomChargeColorProcessor
• AtomContainer() : BALL::AtomContainer
• AtomContainerIteratorTraits() : BALL::AtomContainerIteratorTraits
• AtomDistanceColorProcessor() : BALL::VIEW::AtomDistanceColorProcessor
• AtomDistanceHashMap : BALL::VIEW::AtomDistanceColorProcessor
• AtomEntry() : BALL::PDB::Structure::AtomEntry
• AtomGrid : BALL::VIEW::ColorProcessor , BALL::VIEW::ModifyRepresentationDialog
• atomic_coordinate_records : BALL::PDB::BookKeeping
• atomic_number : BALL::MMFF94AtomTyper::AromaticType , BALL::GAFFTypeProcessor::TypeDefinition
• atomic_number_ : BALL::Element , BALL::VIEW::EditableScene
• atomic_number_to_element_ : BALL::PTE_
• atomic_property : BALL::GAFFTypeProcessor::TypeDefinition
• atomic_radius_ : BALL::Element
• atomic_weight_ : BALL::Element
• AtomicNumber : BALL::Element
• AtomicPolarizabilities() : BALL::AtomicPolarizabilities
• AtomIndexArray : BALL::PeriodicBoundary
• AtomIndexList : BALL::Atom
• AtomIndexMap : BALL::KCFFile
• AtomIndexPair : BALL::PeriodicBoundary
• AtomInformationContent() : BALL::AtomInformationContent
• AtomIteratorTraits() : BALL::AtomIteratorTraits
• AtomOverview() : BALL::VIEW::AtomOverview
• AtomPair : BALL::AtomBijection
• atomProperties_() : BALL::VIEW::PTEDialog , BALL::VIEW::EditableScene
• AtomPtrList : BALL::Atom
• atoms : BALL::RingAnalyser::Ring , BALL::PDB::Structure
• atoms_ : BALL::GeneralizedBornModel , BALL::MMFF94ChargeProcessor , BALL::ForceField , BALL::AtomTyper , BALL::MOL2File , BALL::VIEW::AddSurfaceModel
• atoms_to_delete : BALL::AssignBondOrderProcessor::Solution_
• AtomStatus : BALL::RSComputer
• ATOMTYPE_FILENAME : BALL::GAFFTypeProcessor::Option , BALL::GAFFTypeProcessor::Default
• AtomTyper() : BALL::AtomTyper
• AtomTypes() : BALL::AtomTypes
• AtomVector() : BALL::AtomVector
• attachBridged_() : BALL::SDGenerator
• attachCore_() : BALL::SDGenerator
• attached_hydrogens : BALL::GAFFTypeProcessor::TypeDefinition
• attachFused_() : BALL::SDGenerator
• attachSpiro_() : BALL::SDGenerator
• attachTemplate_() : BALL::SDGenerator
• attenuation_ : BALL::VIEW::LightSource
• Au : BALL::Element
• AURUM : BALL::Element
• authors : BALL::PDB::RecordAUTHOR
• AutoDeletable() : BALL::AutoDeletable
• autoScale() : BALL::VIEW::GridVisualizationDialog , BALL::VIEW::ModifyRepresentationDialog
• autoScaleRequested() : BALL::VIEW::GridColorWidget
• average_ : BALL::EmpiricalHSShiftProcessor::ShiftHyperSurface_
• AVERAGE_SECTION_NAME : BALL::CreateSpectrumProcessor
• AverageBondAngle_() : BALL::HybridisationProcessor
• averaging_ : BALL::PolarSolvation
• AVERAGING__NONE : BALL::PolarSolvation
• AVERAGING__RANDOM : BALL::PolarSolvation
• AVERAGING__RANDOM_FACTOR : BALL::PolarSolvation
• AVERAGING__STATIC : BALL::PolarSolvation
• AveragingMethod : BALL::PolarSolvation
• AVOGADRO : BALL::Constant
• axis_color_ : BALL::VIEW::RegularData2DWidget , BALL::VIEW::RegularData1DWidget