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 and Description
static StructureAtomLinkage	StructureUtil.getStructureAtomLinkage(Atom atom1, boolean isParentAminoAcid1, Atom atom2, boolean isParentAminoAcid2)

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

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

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

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

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

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

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

Constructor and Description
ModifiedCompoundImpl(ProteinModification modification, java.util.Collection<StructureAtomLinkage> linkages)