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public interface ModifiedCompound
Root interface for all modifications in structure.
Method Summary | |
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boolean |
addAtomLinkage(StructureAtomLinkage linkage)
Add a linkage. |
void |
addAtomLinkages(Collection<StructureAtomLinkage> linkages)
Add a collections of linkages. |
boolean |
crossChains()
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Set<StructureAtomLinkage> |
getAtomLinkages()
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String |
getDescription()
return a description of this compound |
Set<StructureGroup> |
getGroups()
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Set<StructureGroup> |
getGroups(boolean isAminoAcid)
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ProteinModification |
getModification()
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void |
setAtomLinkages(Set<StructureAtomLinkage> linkages)
Set atom linkages |
void |
setDescription(String desc)
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void |
setGroups(Set<StructureGroup> groups)
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void |
setModification(ProteinModification modi)
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Method Detail |
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String getDescription()
void setDescription(String desc)
ProteinModification getModification()
ProteinModificationBean
occurred on the residue.void setModification(ProteinModification modi)
Set<StructureGroup> getGroups()
void setGroups(Set<StructureGroup> groups)
Set<StructureGroup> getGroups(boolean isAminoAcid)
isAminoAcid
- true if amino acids.
Set<StructureAtomLinkage> getAtomLinkages()
#getLinkedGroupPairs
,
StructureAtomLinkage
void setAtomLinkages(Set<StructureAtomLinkage> linkages)
boolean addAtomLinkage(StructureAtomLinkage linkage)
addGroup
.
linkage
- an atom linkage.
StructureAtomLinkage
void addAtomLinkages(Collection<StructureAtomLinkage> linkages)
linkages
- an atom linkage.boolean crossChains()
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