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Class List
Here are the classes, structs, unions and interfaces with brief descriptions:
org.openscience.cdk.io.formats.ABINITFormat
org.openscience.cdk.qsar.AbstractAtomicDescriptor
org.openscience.cdk.qsar.AbstractBondDescriptor
org.openscience.cdk.tools.diff.tree.AbstractDifference
org.openscience.cdk.tools.diff.tree.AbstractDifferenceList
org.openscience.cdk.validate.AbstractValidator
org.openscience.cdk.io.formats.Aces2Format
org.openscience.cdk.formula.AdductFormula
org.openscience.cdk.reaction.mechanism.AdductionLPMechanism
org.openscience.cdk.reaction.mechanism.AdductionPBMechanism
org.openscience.cdk.reaction.type.AdductionProtonLPReaction
org.openscience.cdk.reaction.type.AdductionProtonPBReaction
org.openscience.cdk.reaction.type.AdductionSodiumLPReaction
org.openscience.cdk.io.formats.ADFFormat
org.openscience.cdk.graph.matrix.AdjacencyMatrix
org.openscience.cdk.qsar.descriptors.atomic.ProtonAffinityHOSEDescriptor.Affinitydb
org.openscience.cdk.io.formats.AlchemyFormat
org.openscience.cdk.isomorphism.matchers.smarts.AliphaticAtom
org.openscience.cdk.isomorphism.matchers.smarts.AliphaticSymbolAtom
org.openscience.cdk.ringsearch.AllRingsFinder
org.openscience.cdk.qsar.descriptors.molecular.ALOGPDescriptor
org.openscience.cdk.AminoAcid
org.openscience.cdk.qsar.descriptors.molecular.AminoAcidCountDescriptor
org.openscience.cdk.tools.manipulator.AminoAcidManipulator
org.openscience.cdk.templates.AminoAcids
org.openscience.cdk.modeling.forcefield.AngleBending
org.openscience.cdk.math.qm.AngularMomentum
org.openscience.cdk.isomorphism.matchers.smarts.AnyAtom
org.openscience.cdk.isomorphism.matchers.smarts.AnyOrderQueryBond
org.openscience.cdk.qsar.descriptors.molecular.APolDescriptor
org.openscience.cdk.isomorphism.matchers.smarts.AromaticAtom
org.openscience.cdk.qsar.descriptors.molecular.AromaticAtomsCountDescriptor
org.openscience.cdk.qsar.descriptors.molecular.AromaticBondsCountDescriptor
org.openscience.cdk.aromaticity.AromaticityCalculator
org.openscience.cdk.isomorphism.matchers.smarts.AromaticOrSingleQueryBond
org.openscience.cdk.isomorphism.matchers.smarts.AromaticQueryBond
org.openscience.cdk.isomorphism.matchers.smarts.AromaticSymbolAtom
org.openscience.cdk.Association
org.openscience.cdk.smiles.smarts.parser.ASTAliphatic
org.openscience.cdk.smiles.smarts.parser.ASTAnyAtom
org.openscience.cdk.smiles.smarts.parser.ASTAromatic
org.openscience.cdk.smiles.smarts.parser.ASTAtom
org.openscience.cdk.smiles.smarts.parser.ASTAtomicMass
org.openscience.cdk.smiles.smarts.parser.ASTAtomicNumber
org.openscience.cdk.smiles.smarts.parser.ASTCharge
org.openscience.cdk.smiles.smarts.parser.ASTChirality
org.openscience.cdk.smiles.smarts.parser.ASTElement
org.openscience.cdk.smiles.smarts.parser.ASTExplicitAtom
org.openscience.cdk.smiles.smarts.parser.ASTExplicitConnectivity
org.openscience.cdk.smiles.smarts.parser.ASTExplicitHighAndBond
org.openscience.cdk.smiles.smarts.parser.ASTExplicitHighAndExpression
org.openscience.cdk.smiles.smarts.parser.ASTGroup
org.openscience.cdk.smiles.smarts.parser.ASTHybrdizationNumber
org.openscience.cdk.smiles.smarts.parser.ASTImplicitHCount
org.openscience.cdk.smiles.smarts.parser.ASTImplicitHighAndBond
org.openscience.cdk.smiles.smarts.parser.ASTImplicitHighAndExpression
org.openscience.cdk.smiles.smarts.parser.ASTLowAndBond
org.openscience.cdk.smiles.smarts.parser.ASTLowAndExpression
org.openscience.cdk.smiles.smarts.parser.ASTNonCHHeavyAtom
org.openscience.cdk.smiles.smarts.parser.ASTNotBond
org.openscience.cdk.smiles.smarts.parser.ASTNotExpression
org.openscience.cdk.smiles.smarts.parser.ASTOrBond
org.openscience.cdk.smiles.smarts.parser.ASTOrExpression
org.openscience.cdk.smiles.smarts.parser.ASTPeriodicGroupNumber
org.openscience.cdk.smiles.smarts.parser.ASTPrimitiveAtomExpression
org.openscience.cdk.smiles.smarts.parser.ASTReaction
org.openscience.cdk.smiles.smarts.parser.ASTRecursiveSmartsExpression
org.openscience.cdk.smiles.smarts.parser.ASTRingConnectivity
org.openscience.cdk.smiles.smarts.parser.ASTRingIdentifier
org.openscience.cdk.smiles.smarts.parser.ASTRingMembership
org.openscience.cdk.smiles.smarts.parser.ASTSimpleBond
org.openscience.cdk.smiles.smarts.parser.ASTSmallestRingSize
org.openscience.cdk.smiles.smarts.parser.ASTSmarts
org.openscience.cdk.smiles.smarts.parser.ASTStart
org.openscience.cdk.smiles.smarts.parser.ASTTotalConnectivity
org.openscience.cdk.smiles.smarts.parser.ASTTotalHCount
org.openscience.cdk.smiles.smarts.parser.ASTValence
org.openscience.cdk.Atom
org.openscience.cdk.AtomContainer
org.openscience.cdk.graph.AtomContainerAtomPermutor
org.openscience.cdk.graph.AtomContainerBondPermutor
org.openscience.cdk.tools.manipulator.AtomContainerComparator
org.openscience.cdk.tools.diff.AtomContainerDiff
org.openscience.cdk.AtomContainerSet.AtomContainerIterator
org.openscience.cdk.tools.manipulator.AtomContainerManipulator
org.openscience.cdk.graph.AtomContainerPermutor
org.openscience.cdk.AtomContainerSet
org.openscience.cdk.tools.manipulator.AtomContainerSetManipulator
org.openscience.cdk.qsar.descriptors.molecular.AtomCountDescriptor
org.openscience.cdk.qsar.descriptors.atomic.AtomDegreeDescriptor
org.openscience.cdk.tools.diff.AtomDiff
org.openscience.cdk.qsar.descriptors.atomic.AtomHybridizationDescriptor
org.openscience.cdk.qsar.descriptors.atomic.AtomHybridizationVSEPRDescriptor
org.openscience.cdk.isomorphism.matchers.smarts.AtomicNumberAtom
org.openscience.cdk.qsar.descriptors.bond.AtomicNumberDifferenceDescriptor
org.openscience.cdk.tools.AtomicProperties
org.openscience.cdk.AtomContainer.AtomIterator
org.openscience.cdk.isomorphism.AtomMappingTools
org.openscience.cdk.AtomParity
org.openscience.cdk.layout.AtomPlacer
org.openscience.cdk.modeling.builder3d.AtomPlacer3D
org.openscience.cdk.Bond.AtomsIterator
org.openscience.cdk.modeling.builder3d.AtomTetrahedralLigandPlacer3D
org.openscience.cdk.geometry.AtomTools
org.openscience.cdk.AtomType
org.openscience.cdk.charges.AtomTypeCharges
org.openscience.cdk.tools.diff.AtomTypeDiff
org.openscience.cdk.config.AtomTypeFactory
org.openscience.cdk.config.atomtypes.AtomTypeHandler
org.openscience.cdk.tools.diff.tree.AtomTypeHybridizationDifference
org.openscience.cdk.tools.manipulator.AtomTypeManipulator
org.openscience.cdk.atomtype.mapper.AtomTypeMapper
org.openscience.cdk.config.atomtypes.AtomTypeReader
org.openscience.cdk.tools.AtomTypeTools
org.openscience.cdk.qsar.descriptors.atomic.AtomValenceDescriptor
org.openscience.cdk.qsar.AtomValenceTool
org.openscience.cdk.iupac.parser.AttachedGroup
org.openscience.cdk.qsar.descriptors.molecular.AutocorrelationDescriptorCharge
org.openscience.cdk.qsar.descriptors.molecular.AutocorrelationDescriptorMass
org.openscience.cdk.qsar.descriptors.molecular.AutocorrelationDescriptorPolarizability
org.openscience.cdk.ringsearch.cyclebasis.SimpleCycleBasis.AuxiliaryGraph
org.openscience.cdk.ringsearch.cyclebasis.SimpleCycleBasis.AuxiliaryGraph2
org.openscience.cdk.graph.invariant.exception.BadMatrixFormatException
org.openscience.cdk.validate.BasicValidator
org.openscience.cdk.qsar.descriptors.molecular.BCUTDescriptor
org.openscience.cdk.graph.BFSShortestPath
org.openscience.cdk.io.formats.BGFFormat
net.sf.cdk.tools.bibtex.BibTeXMLEntry
net.sf.cdk.tools.bibtex.BibTeXMLFile
org.openscience.cdk.graph.BiconnectivityInspector
org.openscience.cdk.BioPolymer
org.openscience.cdk.Bond
org.openscience.cdk.qsar.descriptors.molecular.BondCountDescriptor
org.openscience.cdk.tools.diff.BondDiff
org.openscience.cdk.AtomContainer.BondIterator
org.openscience.cdk.tools.manipulator.BondManipulator
org.openscience.cdk.tools.diff.tree.BondOrderDifference
org.openscience.cdk.qsar.descriptors.bond.BondPartialPiChargeDescriptor
org.openscience.cdk.qsar.descriptors.bond.BondPartialSigmaChargeDescriptor
org.openscience.cdk.qsar.descriptors.bond.BondPartialTChargeDescriptor
org.openscience.cdk.qsar.descriptors.bond.BondSigmaElectronegativityDescriptor
org.openscience.cdk.qsar.descriptors.atomic.BondsToAtomDescriptor
org.openscience.cdk.modeling.forcefield.BondStretching
org.openscience.cdk.geometry.BondTools
org.openscience.cdk.tools.diff.tree.BooleanArrayDifference
org.openscience.cdk.tools.diff.tree.BooleanDifference
org.openscience.cdk.io.setting.BooleanIOSetting
org.openscience.cdk.qsar.result.BooleanResult
org.openscience.cdk.qsar.result.BooleanResultType
org.openscience.cdk.qsar.descriptors.molecular.BPolDescriptor
org.openscience.cdk.tools.BremserOneSphereHOSECodePredictor
org.openscience.cdk.smiles.SmilesGenerator.BrokenBond
org.openscience.cdk.io.formats.BSFormat
org.openscience.cdk.graph.rebond.Bspt
org.openscience.cdk.qsar.descriptors.molecular.BCUTDescriptor.BurdenMatrix
org.openscience.cdk.io.formats.CacaoCartesianFormat
org.openscience.cdk.io.formats.CacaoInternalFormat
org.openscience.cdk.io.formats.CACheFormat
org.openscience.cdk.graph.invariant.CanonicalLabeler
org.openscience.cdk.qsar.descriptors.molecular.CarbonTypesDescriptor
org.openscience.cdk.reaction.type.CarbonylEliminationReaction
org.openscience.cdk.index.CASNumber
org.openscience.cdk.ConformerContainer.CCIterator
org.openscience.cdk.renderer.color.CDK2DAtomColors
org.openscience.cdk.renderer.color.CDKAtomColors
org.openscience.cdk.atomtype.CDKAtomTypeMatcher
org.openscience.cdk.config.CDKBasedAtomTypeConfigurator
net.sf.cdk.tools.doclets.CDKBugTaglet
net.sf.cdk.tools.doclets.CDKCiteTaglet
org.openscience.cdk.CDKConstants
org.openscience.cdk.io.cml.CDKConvention
org.openscience.cdk.dict.CDKDictionaryReferences
net.sf.cdk.tools.doclets.CDKDictRefTaglet
org.openscience.cdk.exception.CDKException
net.sf.cdk.tools.doclets.CDKGitTaglet
org.openscience.cdk.aromaticity.CDKHueckelAromaticityDetector
org.openscience.cdk.tools.CDKHydrogenAdder
net.sf.cdk.tools.doclets.CDKInChITaglet
net.sf.cdk.tools.doclets.CDKModuleTaglet
org.openscience.cdk.controller.CDKPopupMenu
org.openscience.cdk.io.formats.CDKSourceCodeFormat
org.openscience.cdk.io.CDKSourceCodeWriter
net.sf.cdk.tools.doclets.CDKThreadNonSafeTaglet
net.sf.cdk.tools.doclets.CDKThreadSafeTaglet
org.openscience.cdk.tools.CDKUtilities
org.openscience.cdk.tools.CDKValencyChecker
org.openscience.cdk.validate.CDKValidator
org.openscience.cdk.libio.md.ChargeGroup
org.openscience.cdk.formula.rules.ChargeRule
net.sf.cdk.tools.copyright.CheckCopyrightStatements
net.sf.cdk.tools.coverage.CheckModuleCoverage
org.openscience.cdk.io.formats.Chem3D_Cartesian_1Format
org.openscience.cdk.io.formats.Chem3D_Cartesian_2Format
org.openscience.cdk.io.formats.ChemDrawFormat
org.openscience.cdk.ChemFile
org.openscience.cdk.tools.manipulator.ChemFileManipulator
org.openscience.cdk.structgen.stochastic.operator.ChemGraph
org.openscience.cdk.ChemModel
org.openscience.cdk.ChemSequence.ChemModelIterator
org.openscience.cdk.tools.manipulator.ChemModelManipulator
org.openscience.cdk.ChemObject
org.openscience.cdk.event.ChemObjectChangeEvent
org.openscience.cdk.tools.diff.ChemObjectDiff
org.openscience.cdk.tools.diff.tree.ChemObjectDifference
org.openscience.cdk.Mapping.ChemObjectIterator
org.openscience.cdk.ChemSequence
org.openscience.cdk.ChemFile.ChemSequenceIterator
org.openscience.cdk.tools.manipulator.ChemSequenceManipulator
org.openscience.cdk.io.formats.ChemtoolFormat
org.openscience.cdk.qsar.descriptors.molecular.ChiChainDescriptor
org.openscience.cdk.qsar.descriptors.molecular.ChiClusterDescriptor
org.openscience.cdk.qsar.descriptors.molecular.ChiIndexUtils
org.openscience.cdk.qsar.descriptors.molecular.ChiPathClusterDescriptor
org.openscience.cdk.qsar.descriptors.molecular.ChiPathDescriptor
org.openscience.cdk.isomorphism.matchers.smarts.ChiralityAtom
org.openscience.cdk.io.formats.CIFFormat
org.openscience.cdk.io.CIFReader
org.openscience.cdk.math.qm.ClosedShellJob
org.openscience.cdk.io.cml.CMLCoreModule
org.openscience.cdk.io.cml.CMLErrorHandler
org.openscience.cdk.io.formats.CMLFormat
org.openscience.cdk.io.cml.CMLHandler
org.openscience.cdk.io.cml.CMLReactionModule
org.openscience.cdk.io.CMLReader
org.openscience.cdk.io.cml.CMLResolver
org.openscience.cdk.io.formats.CMLRSSFormat
org.openscience.cdk.io.cml.CMLStack
org.openscience.cdk.io.CMLWriter
org.openscience.cdk.qsar.model.R.CNNClassificationModel
org.openscience.cdk.qsar.model.R.CNNClassificationModelFit
org.openscience.cdk.qsar.model.R.CNNClassificationModelPredict
org.openscience.cdk.qsar.model.R.CNNRegressionModel
org.openscience.cdk.qsar.model.R2.CNNRegressionModel
org.openscience.cdk.qsar.model.R.CNNRegressionModelFit
org.openscience.cdk.qsar.model.R.CNNRegressionModelPredict
org.openscience.cdk.qsar.model.R.CNNRegressionModelSummary
org.openscience.cdk.formula.rules.RDBERule.Combinations
org.openscience.cdk.math.Complex
org.openscience.cdk.ConformerContainer
org.openscience.cdk.graph.invariant.ConjugatedPiSystemsDetector
org.openscience.cdk.modeling.forcefield.ConjugateGradientMethod
org.openscience.cdk.isomorphism.matchers.smarts.ConnectionCountAtom
org.openscience.cdk.graph.matrix.ConnectionMatrix
org.openscience.cdk.graph.ConnectivityChecker
org.openscience.cdk.libio.cml.Convertor
net.sf.cdk.tools.copyright.CheckCopyrightStatements.CopyrightField
org.openscience.cdk.qsar.descriptors.atomic.CovalentRadiusDescriptor
org.openscience.cdk.renderer.color.CPKAtomColors
org.openscience.cdk.qsar.descriptors.molecular.CPSADescriptor
org.openscience.cdk.io.formats.CRK2DFormat
org.openscience.cdk.io.formats.CRK3DFormat
org.openscience.cdk.structgen.stochastic.operator.CrossoverMachine
org.openscience.cdk.Crystal
org.openscience.cdk.geometry.CrystalGeometryTools
org.openscience.cdk.io.formats.CrystClustFormat
org.openscience.cdk.io.CrystClustReader
org.openscience.cdk.io.CrystClustWriter
org.openscience.cdk.io.formats.CTXFormat
org.openscience.cdk.io.CTXReader
org.openscience.cdk.io.cml.CustomSerializer
org.openscience.cdk.ringsearch.cyclebasis.CycleBasis
org.openscience.cdk.io.formats.DaltonFormat
org.openscience.cdk.formula.rules.MMElementRule.Database
org.openscience.cdk.tools.DataFeatures
org.openscience.cdk.tools.DataFeaturesTool
org.openscience.cdk.tools.DeAromatizationTool
org.openscience.cdk.debug.DebugAdductFormula
org.openscience.cdk.debug.DebugAminoAcid
org.openscience.cdk.debug.DebugAtom
org.openscience.cdk.debug.DebugAtomContainer
org.openscience.cdk.debug.DebugAtomContainerSet
org.openscience.cdk.debug.DebugAtomParity
org.openscience.cdk.debug.DebugAtomType
org.openscience.cdk.debug.DebugBioPolymer
org.openscience.cdk.debug.DebugBond
org.openscience.cdk.debug.DebugChemFile
org.openscience.cdk.debug.DebugChemModel
org.openscience.cdk.debug.DebugChemObject
org.openscience.cdk.debug.DebugChemObjectBuilder
org.openscience.cdk.debug.DebugChemSequence
org.openscience.cdk.debug.DebugCrystal
org.openscience.cdk.debug.DebugElectronContainer
org.openscience.cdk.debug.DebugElement
org.openscience.cdk.debug.DebugFragmentAtom
org.openscience.cdk.debug.DebugIsotope
org.openscience.cdk.debug.DebugLonePair
org.openscience.cdk.debug.DebugMapping
org.openscience.cdk.debug.DebugMolecularFormula
org.openscience.cdk.debug.DebugMolecularFormulaSet
org.openscience.cdk.debug.DebugMolecule
org.openscience.cdk.debug.DebugMoleculeSet
org.openscience.cdk.debug.DebugMonomer
org.openscience.cdk.debug.DebugPDBAtom
org.openscience.cdk.debug.DebugPDBMonomer
org.openscience.cdk.debug.DebugPDBPolymer
org.openscience.cdk.debug.DebugPDBStructure
org.openscience.cdk.debug.DebugPolymer
org.openscience.cdk.debug.DebugPseudoAtom
org.openscience.cdk.debug.DebugReaction
org.openscience.cdk.debug.DebugReactionScheme
org.openscience.cdk.debug.DebugReactionSet
org.openscience.cdk.debug.DebugRing
org.openscience.cdk.debug.DebugRingSet
org.openscience.cdk.debug.DebugSingleElectron
org.openscience.cdk.debug.DebugStrand
org.openscience.cdk.smiles.DeduceBondSystemTool
org.openscience.cdk.DefaultChemObjectBuilder
org.openscience.cdk.io.DefaultChemObjectReader
org.openscience.cdk.io.DefaultChemObjectWriter
org.openscience.cdk.io.iterator.event.DefaultEventChemObjectReader
org.openscience.cdk.io.iterator.DefaultIteratingChemObjectReader
org.openscience.cdk.io.random.DefaultRandomAccessChemObjectReader
org.openscience.cdk.isomorphism.matchers.smarts.DegreeAtom
org.openscience.cdk.qsar.DescriptorEngine
org.openscience.cdk.qsar.DescriptorException
org.openscience.cdk.qsar.DescriptorSpecification
org.openscience.cdk.qsar.DescriptorValue
org.openscience.cdk.dict.Dictionary
org.openscience.cdk.dict.DictionaryDatabase
org.openscience.cdk.dict.DictionaryHandler
org.openscience.cdk.validate.DictionaryValidator
org.openscience.cdk.dict.DictRef
org.openscience.cdk.interfaces.IReaction.Direction
org.openscience.cdk.similarity.DistanceMoment
org.openscience.cdk.qsar.descriptors.atomic.DistanceToAtomDescriptor
org.openscience.cdk.io.formats.DMol3Format
org.openscience.cdk.io.formats.DOCK5Format
org.openscience.cdk.qsar.result.DoubleArrayResult
org.openscience.cdk.qsar.result.DoubleArrayResultType
org.openscience.cdk.tools.diff.tree.DoubleDifference
org.openscience.cdk.qsar.result.DoubleResult
org.openscience.cdk.qsar.result.DoubleResultType
org.openscience.cdk.qsar.descriptors.molecular.EccentricConnectivityIndexDescriptor
org.openscience.cdk.qsar.descriptors.atomic.EffectiveAtomPolarizabilityDescriptor
org.openscience.cdk.ElectronContainer
org.openscience.cdk.tools.diff.ElectronContainerDiff
org.openscience.cdk.AtomContainer.ElectronContainerIterator
org.openscience.cdk.charges.Electronegativity
org.openscience.cdk.reaction.type.ElectronImpactNBEReaction
org.openscience.cdk.reaction.type.ElectronImpactPDBReaction
org.openscience.cdk.reaction.type.ElectronImpactSDBReaction
org.openscience.cdk.modeling.forcefield.ElectrostaticInteractions
org.openscience.cdk.Element
org.openscience.cdk.graph.rebond.Bspt.Element
org.openscience.cdk.tools.ElementComparator
org.openscience.cdk.tools.diff.ElementDiff
org.openscience.cdk.config.ElementPTFactory
org.openscience.cdk.config.elements.ElementPTHandler
org.openscience.cdk.config.elements.ElementPTReader
org.openscience.cdk.formula.rules.ElementRule
org.openscience.cdk.config.Elements
org.openscience.cdk.dict.Entry
org.openscience.cdk.dict.EntryReact
org.openscience.cdk.graph.rebond.Bspt.EnumerateAll
org.openscience.cdk.graph.rebond.Bspt.EnumerateNear
org.openscience.cdk.graph.rebond.Bspt.EnumerateSphere
org.openscience.cdk.EnzymeResidueLocator
org.openscience.cdk.graph.invariant.EquivalentClassPartitioner
org.openscience.cdk.atomtype.EStateAtomTypeMatcher
org.openscience.cdk.fingerprint.EStateFingerprinter
org.openscience.cdk.config.fragments.EStateFragments
org.openscience.cdk.io.iterator.event.EventCMLHandler
org.openscience.cdk.io.iterator.event.EventCMLReader
org.openscience.cdk.isomorphism.matchers.smarts.ExplicitConnectionAtom
org.openscience.cdk.fingerprint.ExtendedFingerprinter
org.openscience.cdk.io.formats.FenskeHall_ZMatrixFormat
org.openscience.cdk.ringsearch.FiguerasSSSRFinder
org.openscience.cdk.fingerprint.Fingerprinter
org.openscience.cdk.fingerprint.FingerprinterTool
org.openscience.cdk.io.formats.FingerprintFormat
org.openscience.cdk.tools.FixedSizeStack
org.openscience.cdk.modeling.forcefield.ForceField
org.openscience.cdk.modeling.builder3d.ForceFieldConfigurator
org.openscience.cdk.modeling.forcefield.ForceFieldTools
org.openscience.cdk.isomorphism.matchers.smarts.FormalChargeAtom
org.openscience.cdk.tools.FormatStringBuffer.Format
org.openscience.cdk.io.FormatFactory
org.openscience.cdk.tools.FormatStringBuffer
org.openscience.cdk.math.FortranFormat
org.openscience.cdk.math.qm.FourierGridBasis
org.openscience.cdk.FragmentAtom
org.openscience.cdk.qsar.descriptors.molecular.FragmentComplexityDescriptor
org.openscience.cdk.io.formats.GamessFormat
org.openscience.cdk.io.GamessReader
org.openscience.cdk.charges.GasteigerMarsiliPartialCharges
org.openscience.cdk.charges.GasteigerPEPEPartialCharges
org.openscience.cdk.io.formats.Gaussian03Format
org.openscience.cdk.io.Gaussian03Reader
org.openscience.cdk.io.formats.Gaussian90Format
org.openscience.cdk.io.formats.Gaussian92Format
org.openscience.cdk.io.formats.Gaussian94Format
org.openscience.cdk.io.formats.Gaussian95Format
org.openscience.cdk.io.formats.Gaussian98Format
org.openscience.cdk.io.Gaussian98Reader
org.openscience.cdk.io.formats.GaussianInputFormat
org.openscience.cdk.io.program.GaussianInputWriter
org.openscience.cdk.math.qm.GaussiansBasis
org.openscience.cdk.tools.GenerateFragments
org.openscience.cdk.modeling.forcefield.GeometricMinimizer
org.openscience.cdk.validate.Geometry3DValidator
org.openscience.cdk.geometry.GeometryTools
org.openscience.cdk.io.formats.GhemicalMMFormat
org.openscience.cdk.io.GhemicalMMReader
org.openscience.cdk.io.formats.GhemicalSPMFormat
org.openscience.cdk.graph.invariant.GIMatrix
org.openscience.cdk.fingerprint.GraphOnlyFingerprinter
org.openscience.cdk.renderer.GraphRendererModel
org.openscience.cdk.qsar.descriptors.molecular.GravitationalIndexDescriptor
org.openscience.cdk.tools.GridGenerator
org.openscience.cdk.io.formats.GROMOS96Format
org.openscience.cdk.qsar.descriptors.molecular.HBondAcceptorCountDescriptor
org.openscience.cdk.qsar.descriptors.molecular.HBondDonorCountDescriptor
org.openscience.cdk.reaction.mechanism.HeterolyticCleavageMechanism
org.openscience.cdk.reaction.type.HeterolyticCleavagePBReaction
org.openscience.cdk.reaction.type.HeterolyticCleavageSBReaction
org.openscience.cdk.io.formats.HINFormat
org.openscience.cdk.io.HINReader
org.openscience.cdk.io.HINWriter
org.openscience.cdk.reaction.mechanism.HomolyticCleavageMechanism
org.openscience.cdk.reaction.type.HomolyticCleavageReaction
org.openscience.cdk.tools.HOSECodeAnalyser
org.openscience.cdk.tools.HOSECodeGenerator
org.openscience.cdk.tools.BremserOneSphereHOSECodePredictor.HOSECodeShiftRange
org.openscience.cdk.graph.invariant.HuLuIndexTool
org.openscience.cdk.interfaces.IAtomType.Hybridization
org.openscience.cdk.isomorphism.matchers.smarts.HybridizationNumberAtom
org.openscience.cdk.isomorphism.matchers.smarts.HydrogenAtom
org.openscience.cdk.layout.HydrogenPlacer
org.openscience.cdk.reaction.type.HyperconjugationReaction
org.openscience.cdk.interfaces.IAdductFormula
org.openscience.cdk.interfaces.IAminoAcid
org.openscience.cdk.interfaces.IAtom
org.openscience.cdk.renderer.color.IAtomColorer
org.openscience.cdk.interfaces.IAtomContainer
org.openscience.cdk.interfaces.IAtomContainerSet
org.openscience.cdk.qsar.IAtomicDescriptor
org.openscience.cdk.qsar.IAtomPairDescriptor
org.openscience.cdk.interfaces.IAtomParity
org.openscience.cdk.interfaces.IAtomType
org.openscience.cdk.config.IAtomTypeConfigurator
org.openscience.cdk.atomtype.IAtomTypeGuesser
org.openscience.cdk.atomtype.IAtomTypeMatcher
org.openscience.cdk.math.qm.IBasis
org.openscience.cdk.interfaces.IBioPolymer
org.openscience.cdk.interfaces.IBond
org.openscience.cdk.qsar.IBondDescriptor
org.openscience.cdk.event.ICDKChangeListener
org.openscience.cdk.event.ICDKSelectionChangeListener
org.openscience.cdk.charges.IChargeCalculator
org.openscience.cdk.interfaces.IChemFile
org.openscience.cdk.io.formats.IChemFormat
org.openscience.cdk.io.formats.IChemFormatMatcher
org.openscience.cdk.interfaces.IChemModel
org.openscience.cdk.interfaces.IChemObject
org.openscience.cdk.interfaces.IChemObjectBuilder
org.openscience.cdk.interfaces.IChemObjectChangeEvent
org.openscience.cdk.io.IChemObjectIO
org.openscience.cdk.io.listener.IChemObjectIOListener
org.openscience.cdk.interfaces.IChemObjectListener
org.openscience.cdk.io.IChemObjectReader
org.openscience.cdk.io.IChemObjectWriter
org.openscience.cdk.interfaces.IChemSequence
org.openscience.cdk.io.cml.ICMLConvention
org.openscience.cdk.libio.cml.ICMLCustomizer
org.openscience.cdk.io.cml.ICMLModule
org.openscience.cdk.interfaces.ICrystal
org.openscience.cdk.tools.IDCreator
org.openscience.cdk.tools.IDeduceBondOrderTool
org.openscience.cdk.qsar.IDescriptor
org.openscience.cdk.qsar.result.IDescriptorResult
org.openscience.cdk.tools.diff.tree.IDifference
org.openscience.cdk.tools.diff.tree.IDifferenceList
org.openscience.cdk.interfaces.IElectronContainer
org.openscience.cdk.charges.IElectronicPropertyCalculator
org.openscience.cdk.interfaces.IElement
org.openscience.cdk.io.iterator.event.IEventChemObjectReader
org.openscience.cdk.fingerprint.IFingerprinter
org.openscience.cdk.interfaces.IFragmentAtom
org.openscience.cdk.math.IFunction
org.openscience.cdk.graph.matrix.IGraphMatrix
org.openscience.cdk.IImplementationSpecification
org.openscience.cdk.interfaces.IIsotope
org.openscience.cdk.io.iterator.IIteratingChemObjectReader
org.openscience.cdk.interfaces.ILonePair
org.openscience.cdk.interfaces.IMapping
org.openscience.cdk.math.IMatrix
org.openscience.cdk.qsar.model.IModel
org.openscience.cdk.qsar.IMolecularDescriptor
org.openscience.cdk.interfaces.IMolecularFormula
org.openscience.cdk.interfaces.IMolecularFormulaSet
org.openscience.cdk.interfaces.IMolecule
org.openscience.cdk.interfaces.IMoleculeSet
org.openscience.cdk.interfaces.IMonomer
org.openscience.cdk.controller.IMouseEventRelay
org.openscience.cdk.isomorphism.matchers.smarts.ImplicitHCountAtom
org.openscience.cdk.io.inchi.INChIContentProcessorTool
org.openscience.cdk.io.formats.INChIFormat
org.openscience.cdk.inchi.InChIGenerator
org.openscience.cdk.inchi.InChIGeneratorFactory
org.openscience.cdk.io.inchi.INChIHandler
org.openscience.cdk.io.formats.INChIPlainTextFormat
org.openscience.cdk.io.INChIPlainTextReader
org.openscience.cdk.io.INChIReader
org.openscience.cdk.inchi.InChIToStructure
org.openscience.cdk.exception.IncorrectUseOfCDKCoreClassError
org.openscience.cdk.graph.invariant.exception.IndexOutOfBoundsException
org.openscience.cdk.qsar.descriptors.atomic.InductiveAtomicHardnessDescriptor
org.openscience.cdk.qsar.descriptors.atomic.InductiveAtomicSoftnessDescriptor
org.openscience.cdk.charges.InductivePartialCharges
org.openscience.cdk.qsar.result.IntegerArrayResult
org.openscience.cdk.qsar.result.IntegerArrayResultType
org.openscience.cdk.tools.diff.tree.IntegerDifference
org.openscience.cdk.io.setting.IntegerIOSetting
org.openscience.cdk.qsar.result.IntegerResult
org.openscience.cdk.qsar.result.IntegerResultType
org.openscience.cdk.exception.InvalidSmilesException
org.openscience.cdk.isomorphism.matchers.InverseSymbolSetQueryAtom
org.openscience.cdk.smiles.InvPair
org.openscience.cdk.tools.IonizationPotentialTool
org.openscience.cdk.io.setting.IOSetting
org.openscience.cdk.reaction.type.parameters.IParameterReact
org.openscience.cdk.qsar.descriptors.atomic.IPAtomicHOSEDescriptor
org.openscience.cdk.qsar.descriptors.atomic.IPAtomicLearningDescriptor
org.openscience.cdk.qsar.descriptors.bond.IPBondLearningDescriptor
org.openscience.cdk.qsar.descriptors.atomic.IPAtomicHOSEDescriptor.IPdb
org.openscience.cdk.interfaces.IPDBAtom
org.openscience.cdk.interfaces.IPDBMonomer
org.openscience.cdk.interfaces.IPDBPolymer
org.openscience.cdk.interfaces.IPDBStructure
org.openscience.cdk.qsar.descriptors.molecular.IPMolecularLearningDescriptor
org.openscience.cdk.interfaces.IPolymer
org.openscience.cdk.modeling.forcefield.IPotentialFunction
org.openscience.cdk.interfaces.IPseudoAtom
org.openscience.cdk.isomorphism.matchers.IQueryAtom
org.openscience.cdk.isomorphism.matchers.IQueryAtomContainer
org.openscience.cdk.isomorphism.matchers.IQueryBond
org.openscience.cdk.io.random.IRandomAccessChemObjectReader< T >
org.openscience.cdk.geometry.IRDFWeightFunction
org.openscience.cdk.interfaces.IReaction
org.openscience.cdk.reaction.IReactionMechanism
org.openscience.cdk.reaction.IReactionProcess
org.openscience.cdk.interfaces.IReactionScheme
org.openscience.cdk.interfaces.IReactionSet
org.openscience.cdk.io.listener.IReaderListener
org.openscience.cdk.io.formats.IResourceFormat
org.openscience.cdk.interfaces.IRing
org.openscience.cdk.interfaces.IRingSet
org.openscience.cdk.formula.rules.IRule
org.openscience.cdk.io.ISimpleChemObjectReader
org.openscience.cdk.interfaces.ISingleElectron
org.openscience.cdk.templates.saturatedhydrocarbons.IsoAlkanes
org.openscience.cdk.isomorphism.IsomorphismTester
org.openscience.cdk.Isotope
org.openscience.cdk.formula.IsotopeContainer
org.openscience.cdk.tools.diff.IsotopeDiff
org.openscience.cdk.config.IsotopeFactory
org.openscience.cdk.config.isotopes.IsotopeHandler
org.openscience.cdk.formula.IsotopePattern
org.openscience.cdk.formula.IsotopePatternGenerator
org.openscience.cdk.formula.IsotopePatternManipulator
org.openscience.cdk.formula.rules.IsotopePatternRule
org.openscience.cdk.formula.IsotopePatternSimilarity
org.openscience.cdk.config.isotopes.IsotopeReader
org.openscience.cdk.qsar.descriptors.atomic.IsProtonInAromaticSystemDescriptor
org.openscience.cdk.qsar.descriptors.atomic.IsProtonInConjugatedPiSystemDescriptor
org.openscience.cdk.interfaces.IStrand
org.openscience.cdk.structgen.IStructureGenerationListener
org.openscience.cdk.io.iterator.IteratingMDLConformerReader
org.openscience.cdk.io.iterator.IteratingMDLReader
org.openscience.cdk.io.iterator.IteratingPCCompoundASNReader
org.openscience.cdk.io.iterator.IteratingPCCompoundXMLReader
org.openscience.cdk.io.iterator.IteratingPCSubstancesXMLReader
org.openscience.cdk.io.iterator.IteratingSMILESReader
org.openscience.cdk.tools.IValencyChecker
org.openscience.cdk.validate.IValidator
org.openscience.cdk.math.IVector
org.openscience.cdk.controller.IViewEventRelay
org.openscience.cdk.io.listener.IWriterListener
org.openscience.cdk.io.formats.JaguarFormat
net.sf.cdk.tools.coverage.CheckModuleCoverage.JavaFilesFilter
org.openscience.cdk.renderer.JCPAction2D
org.openscience.cdk.iupac.parser.NomParser.JJCalls
org.openscience.cdk.smiles.smarts.parser.SMARTSParser.JJCalls
org.openscience.cdk.smiles.smarts.parser.JJTSMARTSParserState
org.openscience.cdk.io.formats.JMEFormat
org.openscience.cdk.io.cml.JMOLANIMATIONConvention
org.openscience.cdk.geometry.alignment.KabschAlignment
org.openscience.cdk.qsar.descriptors.molecular.KappaShapeIndicesDescriptor
org.openscience.cdk.qsar.descriptors.molecular.KierHallSmartsDescriptor
org.openscience.cdk.qsar.descriptors.molecular.LargestChainDescriptor
org.openscience.cdk.qsar.descriptors.molecular.LargestPiSystemDescriptor
org.openscience.cdk.graph.rebond.Bspt.Leaf
org.openscience.cdk.qsar.descriptors.molecular.LengthOverBreadthDescriptor
org.openscience.cdk.qsar.model.R.LinearRegressionModel
org.openscience.cdk.qsar.model.R2.LinearRegressionModel
org.openscience.cdk.qsar.model.R.LinearRegressionModelFit
org.openscience.cdk.qsar.model.R.LinearRegressionModelPredict
org.openscience.cdk.qsar.model.R.LinearRegressionModelSummary
org.openscience.cdk.modeling.forcefield.LineSearch
org.openscience.cdk.modeling.forcefield.LineSearchForTheWolfeConditions
org.openscience.cdk.tools.LoggingTool
org.openscience.cdk.isomorphism.matchers.smarts.LogicalOperatorAtom
org.openscience.cdk.isomorphism.matchers.smarts.LogicalOperatorBond
org.openscience.cdk.LonePair
org.openscience.cdk.tools.diff.LonePairDiff
org.openscience.cdk.tools.LonePairElectronChecker
org.openscience.cdk.AtomContainer.LonePairIterator
org.openscience.cdk.qsar.descriptors.molecular.LongestAliphaticChainDescriptor
org.openscience.cdk.iupac.parser.NomParser.LookaheadSuccess
org.openscience.cdk.smiles.smarts.parser.SMARTSParser.LookaheadSuccess
org.openscience.cdk.fingerprint.MACCSFingerprinter
org.openscience.cdk.fingerprint.MACCSFingerprinter.MaccsKey
org.openscience.cdk.io.formats.MacroModelFormat
net.sf.cdk.tools.MakeJavafilesFiles
org.openscience.cdk.Mapping
org.openscience.cdk.Reaction.MappingIterator
org.openscience.cdk.isomorphism.matchers.smarts.MassAtom
org.openscience.cdk.formula.MassToFormulaTool
org.openscience.cdk.math.MathTools
org.openscience.cdk.math.Matrix
org.openscience.cdk.graph.invariant.exception.MatrixNotInvertibleException
org.openscience.cdk.qsar.descriptors.molecular.MDEDescriptor
org.openscience.cdk.io.formats.MDLFormat
org.openscience.cdk.io.cml.MDLMolConvention
org.openscience.cdk.io.MDLReader
org.openscience.cdk.io.formats.MDLRXNFormat
org.openscience.cdk.io.MDLRXNReader
org.openscience.cdk.io.MDLRXNV2000Reader
org.openscience.cdk.io.formats.MDLRXNV3000Format
org.openscience.cdk.io.MDLRXNV3000Reader
org.openscience.cdk.io.MDLRXNWriter
org.openscience.cdk.io.formats.MDLV2000Format
org.openscience.cdk.io.MDLV2000Reader
org.openscience.cdk.io.formats.MDLV3000Format
org.openscience.cdk.io.MDLV3000Reader
org.openscience.cdk.io.MDLWriter
org.openscience.cdk.libio.md.MDMolecule
org.openscience.cdk.io.cml.MDMoleculeConvention
org.openscience.cdk.libio.cml.MDMoleculeCustomizer
org.openscience.cdk.graph.MinimalPathIterator
org.openscience.cdk.atomtype.MM2AtomTypeMatcher
org.openscience.cdk.modeling.builder3d.MM2BasedAtomTypePattern
org.openscience.cdk.modeling.builder3d.MM2BasedParameterSetReader
org.openscience.cdk.formula.rules.MMElementRule
org.openscience.cdk.atomtype.MMFF94AtomTypeMatcher
org.openscience.cdk.modeling.builder3d.MMFF94BasedAtomTypePattern
org.openscience.cdk.modeling.builder3d.MMFF94BasedParameterSetReader
org.openscience.cdk.modeling.forcefield.MMFF94EnergyFunction
org.openscience.cdk.modeling.builder3d.MMFF94ParametersCall
org.openscience.cdk.charges.MMFF94PartialCharges
org.openscience.cdk.io.formats.MMODFormat
org.openscience.cdk.io.IChemObjectReader.Mode
org.openscience.cdk.modeling.builder3d.ModelBuilder3D
org.openscience.cdk.io.formats.Mol2Format
org.openscience.cdk.io.Mol2Reader
org.openscience.cdk.io.Mol2Writer
org.openscience.cdk.formula.MolecularFormula
org.openscience.cdk.formula.MolecularFormulaChecker
org.openscience.cdk.tools.manipulator.MolecularFormulaManipulator
org.openscience.cdk.formula.MolecularFormulaRange
org.openscience.cdk.tools.manipulator.MolecularFormulaRangeManipulator
org.openscience.cdk.formula.MolecularFormulaSet
org.openscience.cdk.tools.manipulator.MolecularFormulaSetManipulator
org.openscience.cdk.Molecule
org.openscience.cdk.iupac.parser.MoleculeBuilder
org.openscience.cdk.templates.MoleculeFactory
org.openscience.cdk.tools.features.MoleculeFeaturesTool
org.openscience.cdk.graph.MoleculeGraphs
org.openscience.cdk.MoleculeSet
org.openscience.cdk.tools.manipulator.MoleculeSetManipulator
org.openscience.cdk.qsar.descriptors.molecular.MomentOfInertiaDescriptor
org.openscience.cdk.Monomer
org.openscience.cdk.io.formats.MOPAC2002Format
org.openscience.cdk.io.formats.MOPAC7Format
org.openscience.cdk.io.formats.MOPAC93Format
org.openscience.cdk.io.formats.MOPAC97Format
org.openscience.cdk.graph.invariant.MorganNumbersTools
org.openscience.cdk.io.formats.MPQCFormat
org.openscience.cdk.graph.MinimalPathIterator.MyBreadthFirstIterator
org.openscience.cdk.graph.BFSShortestPath.MyBreadthFirstIterator
org.openscience.cdk.geometry.surface.NeighborList
org.openscience.cdk.modeling.forcefield.NewtonRaphsonMethod
org.openscience.cdk.formula.rules.NitrogenRule
org.openscience.cdk.nonotify.NNAdductFormula
org.openscience.cdk.nonotify.NNAminoAcid
org.openscience.cdk.nonotify.NNAtom
org.openscience.cdk.nonotify.NNAtomContainer
org.openscience.cdk.nonotify.NNAtomContainerSet
org.openscience.cdk.nonotify.NNAtomParity
org.openscience.cdk.nonotify.NNAtomType
org.openscience.cdk.nonotify.NNBioPolymer
org.openscience.cdk.nonotify.NNBond
org.openscience.cdk.nonotify.NNChemFile
org.openscience.cdk.nonotify.NNChemModel
org.openscience.cdk.nonotify.NNChemObject
org.openscience.cdk.nonotify.NNChemSequence
org.openscience.cdk.nonotify.NNCrystal
org.openscience.cdk.nonotify.NNElectronContainer
org.openscience.cdk.nonotify.NNElement
org.openscience.cdk.nonotify.NNFragmentAtom
org.openscience.cdk.nonotify.NNIsotope
org.openscience.cdk.nonotify.NNLonePair
org.openscience.cdk.nonotify.NNMapping
org.openscience.cdk.nonotify.NNMolecularFormula
org.openscience.cdk.nonotify.NNMolecularFormulaSet
org.openscience.cdk.nonotify.NNMolecule
org.openscience.cdk.nonotify.NNMoleculeSet
org.openscience.cdk.nonotify.NNMonomer
org.openscience.cdk.nonotify.NNPDBAtom
org.openscience.cdk.nonotify.NNPDBMonomer
org.openscience.cdk.nonotify.NNPDBPolymer
org.openscience.cdk.nonotify.NNPDBStructure
org.openscience.cdk.nonotify.NNPolymer
org.openscience.cdk.nonotify.NNPseudoAtom
org.openscience.cdk.nonotify.NNReaction
org.openscience.cdk.nonotify.NNReactionScheme
org.openscience.cdk.nonotify.NNReactionSet
org.openscience.cdk.nonotify.NNRing
org.openscience.cdk.nonotify.NNRingSet
org.openscience.cdk.nonotify.NNSingleElectron
org.openscience.cdk.nonotify.NNStrand
org.openscience.cdk.graph.rebond.Bspt.Node
org.openscience.cdk.smiles.smarts.parser.Node
org.openscience.cdk.iupac.parser.NomParser
org.openscience.cdk.iupac.parser.NomParserConstants
org.openscience.cdk.iupac.parser.NomParserTokenManager
org.openscience.cdk.isomorphism.matchers.smarts.NonCHHeavyAtom
org.openscience.cdk.nonotify.NoNotificationChemObjectBuilder
org.openscience.cdk.tools.Normalizer
org.openscience.cdk.exception.NoSuchAtomException
org.openscience.cdk.exception.NoSuchAtomTypeException
org.openscience.cdk.geometry.surface.NumericalSurface
org.openscience.cdk.io.formats.NWChemFormat
org.openscience.cdk.math.qm.OneElectronJob
org.openscience.cdk.io.setting.OptionIOSetting
org.openscience.cdk.math.qm.Orbitals
org.openscience.cdk.interfaces.IBond.Order
org.openscience.cdk.isomorphism.matchers.OrderQueryBond
org.openscience.cdk.isomorphism.matchers.smarts.OrderQueryBond
org.openscience.cdk.isomorphism.matchers.OrderQueryBondOrderOnly
org.openscience.cdk.layout.OverlapResolver.OverlapPair
org.openscience.cdk.layout.OverlapResolver
org.openscience.cdk.config.atomtypes.OWLAtomTypeHandler
org.openscience.cdk.config.atomtypes.OWLAtomTypeMappingHandler
org.openscience.cdk.config.atomtypes.OWLAtomTypeMappingReader
org.openscience.cdk.config.atomtypes.OWLAtomTypeReader
org.openscience.cdk.config.OWLBasedAtomTypeConfigurator
org.openscience.cdk.dict.OWLFile
org.openscience.cdk.dict.OWLReact
org.openscience.cdk.qsar.descriptors.molecular.GravitationalIndexDescriptor.pair
org.openscience.cdk.reaction.type.parameters.ParameterReact
org.openscience.cdk.iupac.parser.ParseException
org.openscience.cdk.smiles.smarts.parser.ParseException
org.openscience.cdk.renderer.color.PartialAtomicChargeColors
org.openscience.cdk.structgen.stochastic.PartialFilledStructureMerger
org.openscience.cdk.qsar.descriptors.atomic.PartialPiChargeDescriptor
org.openscience.cdk.qsar.descriptors.atomic.PartialSigmaChargeDescriptor
org.openscience.cdk.qsar.descriptors.atomic.PartialTChargeMMFF94Descriptor
org.openscience.cdk.qsar.descriptors.atomic.PartialTChargePEOEDescriptor
org.openscience.cdk.ringsearch.Path
org.openscience.cdk.graph.PathTools
org.openscience.cdk.qsar.descriptors.molecular.WHIMDescriptor.PCA
org.openscience.cdk.io.PCCompoundASNReader
org.openscience.cdk.io.PCCompoundXMLReader
org.openscience.cdk.io.formats.PCModelFormat
org.openscience.cdk.io.PCSubstanceXMLReader
org.openscience.cdk.protein.data.PDBAtom
org.openscience.cdk.libio.cml.PDBAtomCustomizer
org.openscience.cdk.io.cml.PDBConvention
org.openscience.cdk.io.formats.PDBFormat
org.openscience.cdk.io.formats.PDBMLFormat
org.openscience.cdk.protein.data.PDBMonomer
org.openscience.cdk.protein.data.PDBPolymer
org.openscience.cdk.io.PDBReader
org.openscience.cdk.protein.data.PDBStrand
org.openscience.cdk.protein.data.PDBStructure
org.openscience.cdk.io.PDBWriter
org.openscience.cdk.isomorphism.matchers.smarts.PeriodicGroupNumberAtom
org.openscience.cdk.tools.PeriodicTable
org.openscience.cdk.PeriodicTableElement
org.openscience.cdk.qsar.descriptors.atomic.PeriodicTablePositionDescriptor
org.openscience.cdk.qsar.descriptors.molecular.PetitjeanNumberDescriptor
org.openscience.cdk.qsar.descriptors.molecular.PetitjeanShapeIndexDescriptor
org.openscience.cdk.pharmacophore.PharmacophoreAngleBond
org.openscience.cdk.pharmacophore.PharmacophoreAtom
org.openscience.cdk.pharmacophore.PharmacophoreBond
org.openscience.cdk.pharmacophore.PharmacophoreMatcher
org.openscience.cdk.pharmacophore.PharmacophoreQueryAngleBond
org.openscience.cdk.pharmacophore.PharmacophoreQueryAtom
org.openscience.cdk.pharmacophore.PharmacophoreQueryBond
org.openscience.cdk.pharmacophore.PharmacophoreUtils
org.openscience.cdk.PhysicalConstants
org.openscience.cdk.reaction.type.PiBondingMovementReaction
org.openscience.cdk.qsar.descriptors.atompair.PiContactDetectionDescriptor
org.openscience.cdk.charges.PiElectronegativity
org.openscience.cdk.qsar.descriptors.atomic.PiElectronegativityDescriptor
org.openscience.cdk.qsar.model.R.PLSRegressionModel
org.openscience.cdk.qsar.model.R.PLSRegressionModelFit
org.openscience.cdk.qsar.model.R.PLSRegressionModelPredict
org.openscience.cdk.qsar.model.R.PLSTraining
org.openscience.cdk.qsar.model.R.PLSValidation
org.openscience.cdk.io.cml.PMPConvention
org.openscience.cdk.io.formats.PMPFormat
org.openscience.cdk.io.PMPReader
org.openscience.cdk.graph.rebond.Point
org.openscience.cdk.tools.diff.tree.Point2dDifference
org.openscience.cdk.tools.diff.tree.Point3dDifference
org.openscience.cdk.charges.Polarizability
org.openscience.cdk.Polymer
org.openscience.cdk.io.formats.POVRayFormat
org.openscience.cdk.io.formats.PQSChemFormat
org.openscience.cdk.math.Primes
org.openscience.cdk.validate.ProblemMarker
org.openscience.cdk.geometry.Projector
org.openscience.cdk.io.listener.PropertiesListener
org.openscience.cdk.tools.ProteinBuilderTool
org.openscience.cdk.protein.ProteinPocketFinder
org.openscience.cdk.qsar.descriptors.atomic.ProtonAffinityHOSEDescriptor
org.openscience.cdk.qsar.descriptors.atomic.ProtonTotalPartialChargeDescriptor
org.openscience.cdk.PseudoAtom
org.openscience.cdk.io.formats.PubChemASNFormat
org.openscience.cdk.io.formats.PubChemCompoundsXMLFormat
org.openscience.cdk.io.formats.PubChemCompoundXMLFormat
org.openscience.cdk.io.formats.PubChemFormat
org.openscience.cdk.io.formats.PubChemSubstancesASNFormat
org.openscience.cdk.io.formats.PubChemSubstancesXMLFormat
org.openscience.cdk.io.formats.PubChemSubstanceXMLFormat
org.openscience.cdk.io.pubchemxml.PubChemXMLHelper
org.openscience.cdk.io.formats.QChemFormat
org.openscience.cdk.io.cml.QSARConvention
org.openscience.cdk.libio.cml.QSARCustomizer
org.openscience.cdk.qsar.model.QSARModelException
org.openscience.cdk.math.Quaternion
org.openscience.cdk.isomorphism.matchers.QueryAtomContainer
org.openscience.cdk.isomorphism.matchers.QueryAtomContainerCreator
org.openscience.cdk.ringsearch.Queue
org.openscience.cdk.reaction.type.RadicalChargeSiteInitiationHReaction
org.openscience.cdk.reaction.type.RadicalChargeSiteInitiationReaction
org.openscience.cdk.reaction.type.RadicalSiteHrAlphaReaction
org.openscience.cdk.reaction.type.RadicalSiteHrBetaReaction
org.openscience.cdk.reaction.type.RadicalSiteHrDeltaReaction
org.openscience.cdk.reaction.type.RadicalSiteHrGammaReaction
org.openscience.cdk.reaction.type.RadicalSiteInitiationHReaction
org.openscience.cdk.reaction.type.RadicalSiteInitiationReaction
org.openscience.cdk.reaction.mechanism.RadicalSiteIonizationMechanism
org.openscience.cdk.reaction.mechanism.RadicalSiteRearrangementMechanism
org.openscience.cdk.reaction.type.RadicalSiteRrAlphaReaction
org.openscience.cdk.reaction.type.RadicalSiteRrBetaReaction
org.openscience.cdk.reaction.type.RadicalSiteRrDeltaReaction
org.openscience.cdk.reaction.type.RadicalSiteRrGammaReaction
org.openscience.cdk.io.random.RandomAccessReader
org.openscience.cdk.io.random.RandomAccessSDFReader
org.openscience.cdk.structgen.RandomGenerator
org.openscience.cdk.math.RandomNumbersTool
org.openscience.cdk.formula.rules.MMElementRule.RangeMass
org.openscience.cdk.io.formats.RawCopyFormat
org.openscience.cdk.formula.rules.RDBERule
org.openscience.cdk.geometry.RDFCalculator
org.openscience.cdk.qsar.descriptors.atomic.RDFProtonDescriptor_G3R
org.openscience.cdk.qsar.descriptors.atomic.RDFProtonDescriptor_GDR
org.openscience.cdk.qsar.descriptors.atomic.RDFProtonDescriptor_GHR
org.openscience.cdk.qsar.descriptors.atomic.RDFProtonDescriptor_GHR_topol
org.openscience.cdk.qsar.descriptors.atomic.RDFProtonDescriptor_GSR
org.openscience.cdk.Reaction
org.openscience.cdk.reaction.ReactionChain
org.openscience.cdk.reaction.ReactionEngine
org.openscience.cdk.ReactionSet.ReactionIterator
org.openscience.cdk.tools.manipulator.ReactionManipulator
org.openscience.cdk.ReactionScheme
org.openscience.cdk.tools.manipulator.ReactionSchemeManipulator
org.openscience.cdk.ReactionSet
org.openscience.cdk.tools.manipulator.ReactionSetManipulator
org.openscience.cdk.reaction.ReactionSpecification
org.openscience.cdk.io.ReaderEvent
org.openscience.cdk.io.ReaderFactory
org.openscience.cdk.reaction.type.RearrangementAnionReaction
org.openscience.cdk.reaction.type.RearrangementCationReaction
org.openscience.cdk.reaction.mechanism.RearrangementChargeMechanism
org.openscience.cdk.reaction.type.RearrangementLonePairReaction
org.openscience.cdk.reaction.type.RearrangementRadicalReaction
org.openscience.cdk.graph.rebond.RebondTool
org.openscience.cdk.io.random.RecordReaderEvent
org.openscience.cdk.isomorphism.matchers.smarts.RecursiveSmartsAtom
org.openscience.cdk.reaction.mechanism.RemovingSEofBMechanism
org.openscience.cdk.reaction.mechanism.RemovingSEofNBMechanism
org.openscience.cdk.libio.md.Residue
org.openscience.cdk.isomorphism.mcss.RGraph
org.openscience.cdk.Ring
org.openscience.cdk.isomorphism.matchers.smarts.RingAtom
org.openscience.cdk.isomorphism.matchers.smarts.RingBond
org.openscience.cdk.isomorphism.matchers.smarts.RingIdentifierAtom
org.openscience.cdk.tools.manipulator.RingManipulator
org.openscience.cdk.isomorphism.matchers.smarts.RingMembershipAtom
org.openscience.cdk.ringsearch.RingPartitioner
org.openscience.cdk.layout.RingPlacer
org.openscience.cdk.RingSet
org.openscience.cdk.tools.manipulator.RingSetManipulator
org.openscience.cdk.tools.manipulator.RingSizeComparator
org.openscience.cdk.isomorphism.mcss.RMap
org.openscience.cdk.qsar.model.R.RModel
org.openscience.cdk.qsar.model.R2.RModel
org.openscience.cdk.isomorphism.mcss.RNode
org.openscience.cdk.qsar.descriptors.molecular.RotatableBondsCountDescriptor
org.openscience.cdk.io.RssWriter
org.openscience.cdk.qsar.descriptors.molecular.RuleOfFiveDescriptor
org.openscience.cdk.tools.SaturationChecker
org.openscience.cdk.io.formats.SDFFormat
org.openscience.cdk.io.SDFWriter
org.openscience.cdk.reaction.type.parameters.SetReactionCenter
org.openscience.cdk.reaction.type.SharingAnionReaction
org.openscience.cdk.reaction.type.SharingChargeDBReaction
org.openscience.cdk.reaction.type.SharingChargeSBReaction
org.openscience.cdk.reaction.mechanism.SharingElectronMechanism
org.openscience.cdk.reaction.type.SharingLonePairReaction
org.openscience.cdk.io.formats.ShelXFormat
org.openscience.cdk.io.ShelXReader
org.openscience.cdk.io.ShelXWriter
org.openscience.cdk.qsar.descriptors.atomic.SigmaElectronegativityDescriptor
org.openscience.cdk.math.qm.SimpleBasisSet
org.openscience.cdk.smiles.smarts.parser.SimpleCharStream
org.openscience.cdk.iupac.parser.SimpleCharStream
org.openscience.cdk.ringsearch.cyclebasis.SimpleCycle
org.openscience.cdk.ringsearch.cyclebasis.SimpleCycleBasis
org.openscience.cdk.smiles.smarts.parser.SimpleNode
org.openscience.cdk.SingleElectron
org.openscience.cdk.tools.diff.SingleElectronDiff
org.openscience.cdk.AtomContainer.SingleElectronIterator
org.openscience.cdk.structgen.SingleStructureRandomGenerator
org.openscience.cdk.isomorphism.matchers.smarts.SmallestRingAtom
org.openscience.cdk.smiles.smarts.parser.visitor.Smarts2MQLVisitor
org.openscience.cdk.isomorphism.matchers.smarts.SMARTSAtom
org.openscience.cdk.isomorphism.matchers.smarts.SMARTSBond
org.openscience.cdk.smiles.smarts.parser.visitor.SmartsDumpVisitor
org.openscience.cdk.io.formats.SMARTSFormat
org.openscience.cdk.smiles.smarts.parser.SMARTSParser
org.openscience.cdk.smiles.smarts.parser.SMARTSParserConstants
org.openscience.cdk.smiles.smarts.parser.SMARTSParserTokenManager
org.openscience.cdk.smiles.smarts.parser.SMARTSParserTreeConstants
org.openscience.cdk.smiles.smarts.parser.SMARTSParserVisitor
org.openscience.cdk.smiles.smarts.SMARTSQueryTool
org.openscience.cdk.smiles.smarts.parser.visitor.SmartsQueryVisitor
org.openscience.cdk.io.formats.SMILESFIXFormat
org.openscience.cdk.io.formats.SMILESFormat
org.openscience.cdk.smiles.SmilesGenerator
org.openscience.cdk.smiles.SmilesParser
org.openscience.cdk.io.SMILESReader
org.openscience.cdk.tools.SmilesValencyChecker
org.openscience.cdk.io.SMILESWriter
org.openscience.cdk.modeling.forcefield.SmoothingFunctions
org.openscience.cdk.graph.SpanningTree
org.openscience.cdk.io.formats.SpartanFormat
org.openscience.cdk.ringsearch.SSSRFinder
org.openscience.cdk.charges.StabilizationCharges
org.openscience.cdk.qsar.descriptors.atomic.StabilizationPlusChargeDescriptor
org.openscience.cdk.fingerprint.StandardSubstructureSets
org.openscience.cdk.modeling.forcefield.SteepestDescentsMethod
org.openscience.cdk.isomorphism.matchers.smarts.StereoBond
org.openscience.cdk.Strand
org.openscience.cdk.modeling.forcefield.StretchBendInteractions
org.openscience.cdk.tools.diff.tree.StringDifference
org.openscience.cdk.io.setting.StringIOSetting
org.openscience.cdk.atomtype.StructGenAtomTypeGuesser
org.openscience.cdk.atomtype.StructGenMatcher
org.openscience.cdk.layout.StructureDiagramGenerator
org.openscience.cdk.tools.StructureResonanceGenerator
org.openscience.cdk.fingerprint.SubstructureFingerprinter
org.openscience.cdk.io.formats.SVGFormat
org.openscience.cdk.controller.SwingEventRelay
org.openscience.cdk.io.listener.SwingGUIListener
org.openscience.cdk.controller.SwingMouseEventRelay
org.openscience.cdk.tools.SwissArmyKnife
org.openscience.cdk.atomtype.SybylAtomTypeMatcher
org.openscience.cdk.io.formats.SybylDescriptorFormat
org.openscience.cdk.isomorphism.matchers.SymbolAndChargeQueryAtom
org.openscience.cdk.isomorphism.matchers.SymbolChargeIDQueryAtom
org.openscience.cdk.isomorphism.matchers.SymbolQueryAtom
org.openscience.cdk.config.Symbols
org.openscience.cdk.isomorphism.matchers.SymbolSetQueryAtom
org.openscience.cdk.qsar.descriptors.protein.TaeAminoAcidDescriptor
org.openscience.cdk.similarity.Tanimoto
org.openscience.cdk.reaction.mechanism.TautomerizationMechanism
org.openscience.cdk.reaction.type.TautomerizationReaction
org.openscience.cdk.modeling.builder3d.TemplateExtractor
org.openscience.cdk.layout.TemplateHandler
org.openscience.cdk.modeling.builder3d.TemplateHandler3D
org.openscience.cdk.geometry.surface.Tessellate
org.openscience.cdk.annotations.TestClass
org.openscience.cdk.annotations.TestMethod
org.openscience.cdk.io.listener.TextGUIListener
org.openscience.cdk.io.formats.TinkerMM2Format
org.openscience.cdk.io.formats.TinkerXYZFormat
org.openscience.cdk.smiles.smarts.parser.Token
org.openscience.cdk.iupac.parser.Token
org.openscience.cdk.iupac.parser.TokenMgrError
org.openscience.cdk.smiles.smarts.parser.TokenMgrError
org.openscience.cdk.formula.rules.ToleranceRangeRule
org.openscience.cdk.graph.matrix.TopologicalMatrix
org.openscience.cdk.modeling.forcefield.Torsions
org.openscience.cdk.isomorphism.matchers.smarts.TotalConnectionAtom
org.openscience.cdk.isomorphism.matchers.smarts.TotalHCountAtom
org.openscience.cdk.isomorphism.matchers.smarts.TotalRingConnectionAtom
org.openscience.cdk.isomorphism.matchers.smarts.TotalValencyAtom
org.openscience.cdk.qsar.descriptors.molecular.TPSADescriptor
org.openscience.cdk.tools.HOSECodeGenerator.TreeNode
org.openscience.cdk.tools.HOSECodeGenerator.TreeNodeComparator
org.openscience.cdk.geometry.surface.Triangle
org.openscience.cdk.graph.rebond.Bspt.Tuple
org.openscience.cdk.graph.rebond.RebondTool.TupleAtom
org.openscience.cdk.io.formats.TurboMoleFormat
org.openscience.cdk.config.TXTBasedAtomTypeConfigurator
org.openscience.cdk.controller.UndoAdapter
org.openscience.cdk.io.formats.UniChemXYZFormat
org.openscience.cdk.isomorphism.UniversalIsomorphismTester
org.openscience.cdk.exception.UnsupportedChemObjectException
org.openscience.cdk.io.PCCompoundASNReader.URN
org.openscience.cdk.qsar.model.R.V2M
org.openscience.cdk.qsar.descriptors.molecular.VAdjMaDescriptor
org.openscience.cdk.validate.ValidationReport
org.openscience.cdk.validate.ValidationTest
org.openscience.cdk.validate.ValidatorEngine
org.openscience.cdk.modeling.forcefield.VanDerWaalsInteractions
org.openscience.cdk.io.formats.VASPFormat
org.openscience.cdk.io.VASPReader
org.openscience.cdk.qsar.descriptors.atomic.VdWRadiusDescriptor
org.openscience.cdk.math.Vector
org.openscience.cdk.Vibration
org.openscience.cdk.structgen.VicinitySampler
org.openscience.cdk.io.formats.ViewmolFormat
org.openscience.cdk.qsar.descriptors.molecular.WeightDescriptor
org.openscience.cdk.qsar.descriptors.molecular.WeightedPathDescriptor
org.openscience.cdk.qsar.descriptors.molecular.WHIMDescriptor
org.openscience.cdk.qsar.descriptors.molecular.WienerNumbersDescriptor
org.openscience.cdk.io.WriterFactory
org.openscience.cdk.io.formats.XEDFormat
org.openscience.cdk.qsar.descriptors.molecular.XLogPDescriptor
org.openscience.cdk.io.formats.XYZFormat
org.openscience.cdk.io.XYZReader
org.openscience.cdk.io.XYZWriter
org.openscience.cdk.io.formats.YasaraFormat
org.openscience.cdk.qsar.descriptors.molecular.ZagrebIndexDescriptor
org.openscience.cdk.io.formats.ZindoFormat
org.openscience.cdk.io.formats.ZMatrixFormat
org.openscience.cdk.io.ZMatrixReader
org.openscience.cdk.geometry.ZMatrixTools

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