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

Packages that use IStereoElement

Package	Description
org.openscience.cdk
org.openscience.cdk.debug
org.openscience.cdk.interfaces
org.openscience.cdk.isomorphism.matchers
org.openscience.cdk.silent
org.openscience.cdk.stereo

Uses of IStereoElement in org.openscience.cdk

Fields in org.openscience.cdk with type parameters of type IStereoElement

Modifier and Type	Field	Description
protected List<IStereoElement>	AtomContainerLegacy.stereoElements	Internal list of atom parities.

Methods in org.openscience.cdk that return types with arguments of type IStereoElement

Modifier and Type	Method	Description
Iterable<IStereoElement>	AtomContainer.stereoElements()	Returns the stereo elements defined for this atom container.
Iterable<IStereoElement>	AtomContainerLegacy.stereoElements()	Returns the stereo elements defined for this atom container.

Methods in org.openscience.cdk with parameters of type IStereoElement

Modifier and Type	Method	Description
void	AtomContainer.addStereoElement(IStereoElement element)	Adds a stereo element to this container.
void	AtomContainerLegacy.addStereoElement(IStereoElement element)	Adds a stereo element to this container.

Method parameters in org.openscience.cdk with type arguments of type IStereoElement

Modifier and Type	Method	Description
void	AtomContainer.setStereoElements(List<IStereoElement> elements)	Set the stereo elements - this will replace the existing instance with a new instance.
void	AtomContainerLegacy.setStereoElements(List<IStereoElement> elements)	Set the stereo elements - this will replace the existing instance with a new instance.

Uses of IStereoElement in org.openscience.cdk.debug

Methods in org.openscience.cdk.debug that return types with arguments of type IStereoElement

Modifier and Type	Method	Description
Iterable<IStereoElement>	DebugAminoAcid.stereoElements()	Returns the stereo elements defined for this atom container.
Iterable<IStereoElement>	DebugAtomContainer.stereoElements()	Returns the stereo elements defined for this atom container.
Iterable<IStereoElement>	DebugBioPolymer.stereoElements()	Returns the stereo elements defined for this atom container.
Iterable<IStereoElement>	DebugCrystal.stereoElements()	Returns the stereo elements defined for this atom container.
Iterable<IStereoElement>	DebugMonomer.stereoElements()	Returns the stereo elements defined for this atom container.
Iterable<IStereoElement>	DebugPolymer.stereoElements()	Returns the stereo elements defined for this atom container.
Iterable<IStereoElement>	DebugRing.stereoElements()	Returns the stereo elements defined for this atom container.
Iterable<IStereoElement>	DebugStrand.stereoElements()	Returns the stereo elements defined for this atom container.

Methods in org.openscience.cdk.debug with parameters of type IStereoElement

Modifier and Type	Method	Description
void	DebugAminoAcid.addStereoElement(IStereoElement parity)	Adds a stereo element to this container.
void	DebugAtomContainer.addStereoElement(IStereoElement parity)	Adds a stereo element to this container.
void	DebugBioPolymer.addStereoElement(IStereoElement parity)	Adds a stereo element to this container.
void	DebugCrystal.addStereoElement(IStereoElement parity)	Adds a stereo element to this container.
void	DebugMonomer.addStereoElement(IStereoElement parity)	Adds a stereo element to this container.
void	DebugPolymer.addStereoElement(IStereoElement parity)	Adds a stereo element to this container.
void	DebugRing.addStereoElement(IStereoElement parity)	Adds a stereo element to this container.
void	DebugStrand.addStereoElement(IStereoElement parity)	Adds a stereo element to this container.

Method parameters in org.openscience.cdk.debug with type arguments of type IStereoElement

Modifier and Type	Method	Description
void	DebugAtomContainer.setStereoElements(List<IStereoElement> elements)	Set the stereo elements - this will replace the existing instance with a new instance.

Uses of IStereoElement in org.openscience.cdk.interfaces

Subinterfaces of IStereoElement in org.openscience.cdk.interfaces

Modifier and Type	Interface	Description
interface	IDoubleBondStereochemistry	Stereochemistry specification for double bond stereochemistry.
interface	ITetrahedralChirality	Stereochemistry specification for quadrivalent atoms.

Methods in org.openscience.cdk.interfaces that return IStereoElement

Modifier and Type	Method	Description
IStereoElement	IStereoElement.map(Map<IAtom,IAtom> atoms, Map<IBond,IBond> bonds)	Map the atoms/bonds in this instance to a new stereo element using the provided atom/bond mapping.
IStereoElement<F,C>	IStereoElement.map(Map<IChemObject,IChemObject> chemobjs)	Update the stereo using the remapping of atoms/bonds in this instance to a new stereo element using the provided atom/bond mapping.
IStereoElement<F,C>	IStereoElement.mapStrict(Map<IChemObject,IChemObject> chemobjs)	Update the stereo using the remapping of atoms/bonds in this instance to a new stereo element using the provided atom/bond mapping.
default IStereoElement<F,C>	IStereoElement.updateCarriers(C remove, C rep)
IStereoElement<F,C>	IStereoElement.updateCarriers(C remove, Iterable<C> adds)
IStereoElement<F,C>	IStereoElement.updateCarriers(Set<C> remove, C rep)

Methods in org.openscience.cdk.interfaces that return types with arguments of type IStereoElement

Modifier and Type	Method	Description
Iterable<IStereoElement>	IAtomContainer.stereoElements()	Returns the stereo elements defined for this atom container.

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

Modifier and Type	Method	Description
void	IAtomContainer.addStereoElement(IStereoElement element)	Adds a stereo element to this container.

Method parameters in org.openscience.cdk.interfaces with type arguments of type IStereoElement

Modifier and Type	Method	Description
void	IAtomContainer.setStereoElements(List<IStereoElement> elements)	Set the stereo elements - this will replace the existing instance with a new instance.

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

Fields in org.openscience.cdk.isomorphism.matchers with type parameters of type IStereoElement

Modifier and Type	Field	Description
protected List<IStereoElement>	QueryAtomContainer.stereoElements	Internal list of atom parities.

Methods in org.openscience.cdk.isomorphism.matchers that return types with arguments of type IStereoElement

Modifier and Type	Method	Description
Iterable<IStereoElement>	QueryAtomContainer.stereoElements()	Returns the stereo elements defined for this atom container.

Methods in org.openscience.cdk.isomorphism.matchers with parameters of type IStereoElement

Modifier and Type	Method	Description
void	QueryAtomContainer.addStereoElement(IStereoElement element)	Adds a stereo element to this container.

Method parameters in org.openscience.cdk.isomorphism.matchers with type arguments of type IStereoElement

Modifier and Type	Method	Description
void	QueryAtomContainer.setStereoElements(List<IStereoElement> elements)

Uses of IStereoElement in org.openscience.cdk.silent

Fields in org.openscience.cdk.silent with type parameters of type IStereoElement

Modifier and Type	Field	Description
protected List<IStereoElement>	AtomContainerLegacy.stereoElements	Internal list of atom parities.

Methods in org.openscience.cdk.silent that return types with arguments of type IStereoElement

Modifier and Type	Method	Description
Iterable<IStereoElement>	AtomContainer.stereoElements()	Returns the stereo elements defined for this atom container.
Iterable<IStereoElement>	AtomContainerLegacy.stereoElements()	Returns the stereo elements defined for this atom container.

Methods in org.openscience.cdk.silent with parameters of type IStereoElement

Modifier and Type	Method	Description
void	AtomContainer.addStereoElement(IStereoElement element)	Adds a stereo element to this container.
void	AtomContainerLegacy.addStereoElement(IStereoElement element)	Adds a stereo element to this container.

Method parameters in org.openscience.cdk.silent with type arguments of type IStereoElement

Modifier and Type	Method	Description
void	AtomContainer.setStereoElements(List<IStereoElement> elements)	Set the stereo elements - this will replace the existing instance with a new instance.
void	AtomContainerLegacy.setStereoElements(List<IStereoElement> elements)	Set the stereo elements - this will replace the existing instance with a new instance.

Uses of IStereoElement in org.openscience.cdk.stereo

Classes in org.openscience.cdk.stereo that implement IStereoElement

Modifier and Type	Class	Description
class	Atropisomeric	Restricted axial rotation around Aryl-Aryl bonds.
class	DoubleBondStereochemistry	Stereochemistry specification for double bonds.
class	ExtendedCisTrans	Extended Cis/Trans double bond configuration.
class	ExtendedTetrahedral	Extended tetrahedral configuration.
class	Octahedral	Represents an octahedral configuration of an atom six neighbors.
class	SquarePlanar	Describes square planar configuration.
class	TetrahedralChirality	Stereochemistry specification for tetravalent atoms.
class	TrigonalBipyramidal	Describes a trigonal-bipyramidal configuration.

Methods in org.openscience.cdk.stereo that return IStereoElement

Modifier and Type	Method	Description
protected IStereoElement<IBond,IAtom>	Atropisomeric.create(IBond focus, List<IAtom> carriers, int cfg)
protected IStereoElement<IBond,IBond>	DoubleBondStereochemistry.create(IBond focus, List<IBond> carriers, int cfg)
protected IStereoElement<IBond,IBond>	ExtendedCisTrans.create(IBond focus, List<IBond> carriers, int cfg)
protected IStereoElement<IAtom,IAtom>	ExtendedTetrahedral.create(IAtom focus, List<IAtom> carriers, int cfg)
protected IStereoElement<IAtom,IAtom>	TetrahedralChirality.create(IAtom focus, List<IAtom> carriers, int config)

Methods in org.openscience.cdk.stereo that return types with arguments of type IStereoElement

Modifier and Type	Method	Description
List<IStereoElement>	StereoElementFactory.createAll()	Creates all stereo elements found by Stereocenters using the or 2D/3D coordinates to specify the configuration (clockwise/anticlockwise).