Uses of Interface
org.openscience.cdk.interfaces.ICDKObject

Packages that use ICDKObject

Package	Description
org.openscience.cdk.interfaces
org.openscience.cdk.isomorphism.matchers

Uses of ICDKObject in org.openscience.cdk.interfaces

Subinterfaces of ICDKObject in org.openscience.cdk.interfaces

Modifier and Type	Interface and Description
interface	IAdductFormula Class defining an adduct object in a MolecularFormula.
interface	IAminoAcid A AminoAcid is Monomer which stores additional amino acid specific informations, like the N-terminus atom.
interface	IAtom Represents the idea of an chemical atom.
interface	IAtomContainer Base class for all chemical objects that maintain a list of Atoms and ElectronContainers.
interface	IAtomContainerSet A set of AtomContainers.
interface	IAtomType The base class for atom types.
interface	IBioPolymer A BioPolymer is a subclass of a Polymer which is supposed to store additional informations about the Polymer which are connected to BioPolymers.
interface	IBond Implements the concept of a covalent bond between two or more atoms.
interface	IChemFile An IChemObject containing a number of ChemSequences.
interface	IChemModel An object containing multiple MoleculeSet and the other lower level concepts like rings, sequences, fragments, etc.
interface	IChemObject The base class for all chemical objects in this cdk.
interface	IChemSequence A sequence of ChemModels, which can, for example, be used to store the course of a reaction.
interface	ICrystal Class representing a molecular crystal.
interface	IDoubleBondStereochemistry Stereochemistry specification for double bond stereochemistry.
interface	IElectronContainer Base class for entities containing electrons, like bonds, orbitals, lone-pairs.
interface	IElement Implements the idea of an element in the periodic table.
interface	IFragmentAtom Class to represent an IPseudoAtom which embeds an IAtomContainer.
interface	IIsotope Used to store and retrieve data of a particular isotope.
interface	ILonePair A LonePair is an orbital primarily located with one Atom, containing two electrons.
interface	IMapping Represents a mapping of two atoms.
interface	IMolecularFormula Class defining a molecular formula object.
interface	IMolecularFormulaSet Class defining a molecular formula object.
interface	IMonomer A Monomer is an AtomContainer which stores additional monomer specific informations for a group of Atoms.
interface	IPDBAtom A PDBAtom is a subclass of a Atom which is supposed to store additional informations about the Atom.
interface	IPDBMonomer Represents the idea of an protein monomer as found in PDB files.
interface	IPDBPolymer A PDBPolymer is a subclass of a BioPolymer which is supposed to store additional informations about the BioPolymer which are connected to BioPolymers.
interface	IPDBStructure Represents the idea of an chemical structure.
interface	IPolymer Subclass of Molecule to store Polymer specific attributes that a Polymer has.
interface	IPseudoAtom Represents the idea of a non-chemical atom-like entity, like Me, R, X, Phe, His, etc.
interface	IReaction Represents the idea of a chemical reaction.
interface	IReactionScheme Classes that implement this interface of a scheme.
interface	IReactionSet A set of reactions, for example those taking part in a reaction.
interface	IRing Class representing a ring structure in a molecule.
interface	IRingSet Maintains a set of Ring objects.
interface	ISingleElectron A Single Electron is an orbital which is occupied by only one electron.
interface	IStereoElement<F extends IChemObject,C extends IChemObject> Representation of stereochemical configuration.
interface	IStrand A Strand is an AtomContainer which stores additional strand specific informations for a group of Atoms.
interface	ISubstance A chemical substance that consists of one or more chemical structures.
interface	ITetrahedralChirality Stereochemistry specification for quadrivalent atoms.

Methods in org.openscience.cdk.interfaces with type parameters of type ICDKObject

Modifier and Type	Method and Description
<T extends ICDKObject> T	IChemObjectBuilder.newInstance(Class<T> clazz, Object... params) Creates a new instance of an ICDKObject, using the constructor defined by the given parameters.

Uses of ICDKObject in org.openscience.cdk.isomorphism.matchers

Subinterfaces of ICDKObject in org.openscience.cdk.isomorphism.matchers

Modifier and Type	Interface and Description
interface	IQueryAtom Defines the ability to be matched against IAtom's.
interface	IQueryAtomContainer General concept of a IAtomContainer aimed at doing molecular subgraph queries using the UniversalIsomorphismTester.
interface	IQueryBond Defines the abililty to be matched against IBond's.