Uses of Class
org.biojava.nbio.protmod.structure.StructureAtomLinkage

Packages that use StructureAtomLinkage

Package	Description
org.biojava.nbio.protmod.structure

Uses of StructureAtomLinkage in org.biojava.nbio.protmod.structure

Methods in org.biojava.nbio.protmod.structure that return StructureAtomLinkage

Modifier and Type	Method	Description
static StructureAtomLinkage	StructureUtil.getStructureAtomLinkage(org.biojava.nbio.structure.Atom atom1, boolean isParentAminoAcid1, org.biojava.nbio.structure.Atom atom2, boolean isParentAminoAcid2)

Methods in org.biojava.nbio.protmod.structure that return types with arguments of type StructureAtomLinkage

Modifier and Type	Method	Description
Set<StructureAtomLinkage>	ModifiedCompound.getAtomLinkages()
Set<StructureAtomLinkage>	ModifiedCompoundImpl.getAtomLinkages()
Set<StructureAtomLinkage>	ProteinModificationIdentifier.getUnidentifiableAtomLinkages()

Methods in org.biojava.nbio.protmod.structure with parameters of type StructureAtomLinkage

Modifier and Type	Method	Description
boolean	ModifiedCompound.addAtomLinkage(StructureAtomLinkage linkage)	Add a linkage.
boolean	ModifiedCompoundImpl.addAtomLinkage(StructureAtomLinkage linkage)

Method parameters in org.biojava.nbio.protmod.structure with type arguments of type StructureAtomLinkage

Modifier and Type	Method	Description
void	ModifiedCompound.addAtomLinkages(Collection<StructureAtomLinkage> linkages)	Add a collections of linkages.
void	ModifiedCompoundImpl.addAtomLinkages(Collection<StructureAtomLinkage> linkages)
void	ModifiedCompound.setAtomLinkages(Set<StructureAtomLinkage> linkages)	Set atom linkages
void	ModifiedCompoundImpl.setAtomLinkages(Set<StructureAtomLinkage> linkages)

Constructor parameters in org.biojava.nbio.protmod.structure with type arguments of type StructureAtomLinkage

Constructor	Description
ModifiedCompoundImpl(ProteinModification modification, Collection<StructureAtomLinkage> linkages)