All Classes
Abstract2DSignCalculator
AbstractAWTLayout
AbstractAWTReactionLayout
AbstractCanvasGenerator
AbstractChangeCalculator
AbstractDigraph
AbstractDirectDrawer
AbstractDirectLayout
AbstractDirectReactionLayout
AbstractHighlightDrawer
AbstractLigand
AbstractPriorityRule
AbstractReactionLabeller
AbstractReactor
AbstractSignCalculator
AbstractTetrahedralWedgeRule
ACWTetrahedralWedgeRule
Algorithm
Annotator
Arc
ArcPrimaryDescriptor
ArrowWheel
AtomAtomMapping
AtomAtomMappingContainer
AtomContainerAtomPermutor
AtomContainerComparator
AtomContainerComparatorBy2DCenter
AtomContainerPrinter
AtomContainerSetComparator
AtomicNumberAccessor
AtomicNumberRule
AtomLayout
AtomMatcher
AtomStereoChangeInformation
AuxiliaryDescriptor
Axis
BaseFilter
BaseGameTheory
BaseMapping
BaseMCS
BaseMoleculeSignature
BasicConnectionTable
BasicDebugger
BEMatrix
BestMatch
BestMatchContainer
BinaryTree
BKKCKCF
Block
BlockList
BlockMapper
BlockMapping
BlockPair
BlockReactionCanoniser
BondChange
BondChangeAnnotator
BondChangeCalculationTransformation
BondChangeCalculator
BondEnergies
BondEnergy
BondMatcher
BoundsPrinter
BoundsTree
BulkTransformer
CalculationProcess
CallableAtomMappingTool
CanonicalNumberingGenerator
CanonSmiAdapter
CanvasGenerator
CDK2DSignCalculator
CDK3DSignCalculator
CDKCentreProvider
CDKConnectionTable
CDKInChI
CDKManager
CDKMCS
CDKMCSHandler
CDKMolecularDescriptor
CDKPerceptor
CDKReactionBuilder
CDKRGraph
CDKRMapHandler
CDKRNode
CDKSMILES
CDKSubGraphHandler
Centre
CentreProvider
ChemicalFilters
Chirality2DTool
Chirality3DTool
ChiralityComparisonTool
ChiralityTool
CholeskyDecomposition
ChooseWinner
CircularCanvasGenerator
CMLLoader
ColorRamp
Combination
CombinedRule
CommandLineOptions
CommandLineOptions
Comparison
ConnectionProvider
ConnectionTable
ConnectionTableDigraph
ConvexHull
CoordinateFixer
CreateDirectory
CWTetrahedralWedgeRule
CXlogP
CytoscapeWriter
Debugger
DefaultAtomMatcher
DefaultAtomTypeMatcher
DefaultBondMatcher
DefaultDescriptorManager
DefaultMatcher
DefaultPerceptor
DefinedMapping
Descriptor
Descriptor.Type
DescriptorAccessor
DescriptorList
DescriptorManager
DescriptorRule
Digraph
DirectArrowDrawer
DirectAtomDrawer
DirectBondDrawer
DirectHullDrawer
DirectMoleculeDrawer
DirectRBLastReactionDrawer
DirectReactionDrawer
Distance
DuplicateAtomRule
EBIArrayList
EBIBitSet
EBIDoubleUtility
EBIMatrix
EBIMolSplitter
ECBLAST_BOND_CHANGE_FLAGS
ECBLAST_FLAGS
ECRgroupFrequency
Edge
EdgeBuilder
EigenvalueDecomposition
EnergyFilter
EnumBondTypeChange
EnumSubstrateProduct
ExactMapping
ExplicitHydrogenSingleDownWedgeRule
ExplicitHydrogenSingleUpWedgeRule
ExtAtomContainerManipulator
ExtReactionManipulatorTool
Feature
FilesystemMoleculeDataSource
FilesystemMoleculeDataStore
FilesystemReactionDataSource
FilesystemReactionDataStore
FingerPrintContainer
FingerprintGenerator
FingerprintSubset
FingerprintType
FixedLabeller
Fragment
FragmentFilter
FullTetrahedralWedgeRule
GameTheoryFactory
GameTheoryMatrix
General
GenerateCompatibilityGraph
GlobalEntropyCalculator
GraphMatcher
GraphMatching
GridCanvasGenerator
HanserRingFinder
Highlighter
Holder
HydrogenFreeFingerPrintContainer
IAtomMapping
ICanonicalMoleculeLabeller
ICanonicalReactionLabeller
IChangeCalculator
IChemicalFilter
IDataSource
IDataStore
IdentityLabellingAdaptor
IEdge
IFeature
IFinalMapping
IFingerPrintContainer
IFingerprinter
IFingerprintGenerator
IGameTheory
IGraphMatching
IGraphTheoryMatrix
IInChIContainer
IKey
ImageGenerator
IMapper
IMappingAlgorithm
IMolContainer
IMolDescriptors
InChIContainer
InChiMoleculeLabeller
InchiStereoAndConformation
INode
InsertionSorter
IOReaction
IPatternFingerprinter
IQuery
IQueryCompiler
IQueryTool
IReactionBuilder
IResult
IResults
Isomorphism
IsomorphismMax
IsomorphismMin
ISPFingerprinter
ISPWalker
IStandardizer
IState
IStereoAndConformation
IterationManager
ITimeOut
ITransformation
ITransformation.TargetType
IWalker
JobType
KeggReactionFileContainer
Key
LabelContainer
LabelManager
LabelManager.AnnotationPosition
LayoutCheck
LeftToRightAWTReactionLayout
LeftToRightReactionLayout
Ligand
LigandComparison
LigandSorter
LinearAtomContainerSetLayout
LinearMoleculeSetLayout
LipinskiRuleOfFiveDescriptor
LUDecomposition
Map1ValueComparator
Map2ValueComparator
MappingGraph
MappingHandler
MappingReferenceResolver
MappingSolution
MappingTransformation
MappingUtility
MassNumberAccessor
MassNumberRule
Match
Maths
MatrixPrinter
McGregor
McGregorChecks
McgregorHelper
MCSPlus
MCSPlusHandler
MCSS
MCSSeedGenerator
MCSSolution
MCSSThread
MCSThread
MDLFileReader
MDLReaderBase
MDLRXNV2000Reader
MDLV2000Reader
MDLV2000RXNWriter
MDLV2000Writer
MDLV2000Writer.SPIN_MULTIPLICITY
MDLWriterBase
MolContainer
MoleculeAligner
MoleculeCanonicalizationTransformation
MoleculeInitializer
MoleculeLabelDrawer
MoleculeLayout
MoleculeMoleculeMapping
MoleculeMoleculePair
MolFingerprint
MolMapping
MutableDescriptor
NodeBuilder
NonterminalLigand
OutlineHighlighter
Pair
PairRule
Params
Params.ArrowType
Params.BondStrokeCap
Params.BondStrokeJoin
Params.MoleculeAlignMethod
Params.XAlign
Params.YAlign
PathEdge
PathGraph
PatternFingerprinter
Perceptor
Permutor
Planar
PlanarCentre
PostFilter
PrimaryDescriptor
Priority
PriorityRule
PriorityRule.Type
PsuedoAtomicNumberModifier
QRDecomposition
QueryCompiler
QueryProcessor
RandomNumber
RBlastAtomSignature
RBlastAtomSignatureLabellingAdaptor
RBlastMoleculeFromSignatureBuilder
RBlastMoleculeLabeller
RBlastMoleculeSignature
RBlastMoleculeSignatureLabellingAdaptor
RBlastReaction
RBlastSignatureReactionCanoniser
RBlastSmilesGenerator
ReactantProductPair
ReactionAromatizationTransformation
ReactionAtomIDTransformation
ReactionCanonicalizationTransformation
ReactionCenterFragment
ReactionContainer
ReactionDBContainer
ReactionDecoder
ReactionFileData
ReactionFingerprinter
ReactionIdentityTransformation
ReactionImplicitHydrogenTransformation
ReactionInfoCollector
ReactionIsomorphismHandler
ReactionMechanismTool
ReactionSimilarityTool
ReactionTransformationSequence
Reactor
Reader
RingFilter
RMatrix
RootSystem
RSRule
RuleBasedMappingHandler
RXNFileImporter
RXNFileManipulator
Selector
SignatureMatcher
SignatureMoleculeLabeller
SignatureReactionCanoniser
SignatureRootFinder
SignCalculator
Similarity
SimilarityResult
SimpleHighlighter
SingleDownWedgeRule
SingleMapping
SingleMappingHandler
SingleMoleculeLayout
SingleUpWedgeRule
SingularValueDecomposition
SmilesMoleculeLabeller
SmilesReactionCanoniser
SortMap
SortOrder
Sotter
StandardizeReaction
StereoCenteralityTool
StereoCenterAnalyser
StereoChange
StereoFilter
StereogenicCenterCalculator
StereoMatchException
SubgraphAtomSignature
SubgraphMoleculeSignature
Substructure
Substructure
Suffix
SuperAtomContainer
SuperAtoms
SuperBonds
TargetProcessor
TerminalLigand
TestUtility
Tetrahedral
TetrahedralCentre
ThreeDimensionalSignCalculator
TimeManager
TopToBottomAWTReactionLayout
TopToBottomReactionLayout
Trigonal
TwoDimensionalSignCalculator
Utility
ValencyCalculator
VF2
VF2MCS
VF2Sub
VFMapper
VFMCSMapper
VFMCSState
VFQueryBuilder
VFState
WarpCoreEjection
WedgeRule
WedgeStereoAnalyser
WedgeStereoAnalysisResult
WedgeStereoComparisonResult
WedgeStereoComparisonTool
WedgeStereoLifter
ZERule
ZoomToFitAWTLayout
ZoomToFitDrawer
ZoomToFitGridLayout
ZoomToFitLayout