Uses of Class
org.rcsb.strucmotif.domain.structure.LabelSelection

Packages that use LabelSelection

Package	Description
org.rcsb.strucmotif
org.rcsb.strucmotif.core
org.rcsb.strucmotif.domain.query
org.rcsb.strucmotif.domain.result
org.rcsb.strucmotif.domain.structure

Uses of LabelSelection in org.rcsb.strucmotif

Methods in org.rcsb.strucmotif that return types with arguments of type LabelSelection

Modifier and Type	Method	Description
List<LabelSelection>	Motifs.getLabelSelections()	The residues referenced by this motif.

Uses of LabelSelection in org.rcsb.strucmotif.core

Method parameters in org.rcsb.strucmotif.core with type arguments of type LabelSelection

Modifier and Type	Method	Description
List<ResiduePairOccurrence>	KruskalMotifPruner.prune(Structure structure, List<LabelSelection> labelSelections, List<Map<LabelAtomId,float[]>> residues)
List<ResiduePairOccurrence>	MotifPruner.prune(Structure structure, List<LabelSelection> labelSelections, List<Map<LabelAtomId,float[]>> residues)	Perform pruning operation (e.g.
List<ResiduePairOccurrence>	NoOperationMotifPruner.prune(Structure structure, List<LabelSelection> labelSelections, List<Map<LabelAtomId,float[]>> residues)

Uses of LabelSelection in org.rcsb.strucmotif.domain.query

Methods in org.rcsb.strucmotif.domain.query that return LabelSelection

Modifier and Type	Method	Description
LabelSelection	PositionSpecificExchange.getLabelSelection()	The position this exchange references.

Methods in org.rcsb.strucmotif.domain.query that return types with arguments of type LabelSelection

Modifier and Type	Method	Description
Map<LabelSelection,Set<ResidueType>>	MotifSearchQuery.getExchanges()	All specified exchanges.

Methods in org.rcsb.strucmotif.domain.query with parameters of type LabelSelection

Modifier and Type	Method	Description
QueryBuilder.OptionalStepBuilder	QueryBuilder.OptionalStepBuilder.addPositionSpecificExchange(LabelSelection labelSelection, Collection<ResidueType> residueTypes)	Register an exchange by specifying a 'range'/collection of component types.

Method parameters in org.rcsb.strucmotif.domain.query with type arguments of type LabelSelection

Modifier and Type	Method	Description
QueryBuilder.MandatoryBuilder	QueryBuilder.defineByFileAndSelection(InputStream inputStream, List<LabelSelection> selection)	Define a motif based on a stream of structure data and a selection of components.
QueryBuilder.MandatoryBuilder	QueryBuilder.defineByPdbIdAndSelection(String structureIdentifier, List<LabelSelection> selection)	Define a motif based on the id of the reference structure and a selection of components.
QueryBuilder.MandatoryBuilder	QueryBuilder.defineByStructureAndSelection(Structure structure, List<LabelSelection> labelSelections)	Routine if structure files contains extracted motif.

Constructors in org.rcsb.strucmotif.domain.query with parameters of type LabelSelection

Modifier	Constructor	Description
	PositionSpecificExchange(LabelSelection labelSelection, Set<ResidueType> residueTypes)	Constructs a new position-specific exchange.
	PositionSpecificExchange(LabelSelection labelSelection, ResidueType... residueTypes)

Uses of LabelSelection in org.rcsb.strucmotif.domain.result

Methods in org.rcsb.strucmotif.domain.result that return types with arguments of type LabelSelection

Modifier and Type	Method	Description
List<LabelSelection>	Hit.getLabelSelections()

Constructor parameters in org.rcsb.strucmotif.domain.result with type arguments of type LabelSelection

Modifier	Constructor	Description
	Hit(String structureIdentifier, String assemblyIdentifier, List<LabelSelection> labelSelections, List<ResidueType> residueTypes, float rmsd, Transformation transformation)	Construct a transformed hit (i.e., scored by an alignment).

Uses of LabelSelection in org.rcsb.strucmotif.domain.structure

Methods in org.rcsb.strucmotif.domain.structure that return LabelSelection

Modifier and Type	Method	Description
LabelSelection	Structure.getLabelSelection(int residueIndex)

Methods in org.rcsb.strucmotif.domain.structure that return types with arguments of type LabelSelection

Modifier and Type	Method	Description
List<LabelSelection>	Structure.getLabelSelections()	Access to all unique (label_asym_id, label_seq_id) pairs that exist in this structure.

Methods in org.rcsb.strucmotif.domain.structure with parameters of type LabelSelection

Modifier and Type	Method	Description
Map<LabelAtomId,float[]>	Structure.manifestResidue(LabelSelection labelSelection)	Manifest a residue by its LabelSelection.

Method parameters in org.rcsb.strucmotif.domain.structure with type arguments of type LabelSelection

Modifier and Type	Method	Description
List<Map<LabelAtomId,float[]>>	Structure.manifestResidues(List<LabelSelection> labelSelections)	Manifest a collection of residues by their LabelSelection.

Constructor parameters in org.rcsb.strucmotif.domain.structure with type arguments of type LabelSelection

Modifier	Constructor	Description
	ResidueGraph(Structure structure, List<LabelSelection> labelSelections, List<Map<LabelAtomId,float[]>> residues, float squaredCutoff, boolean allowTransformed)	Construct a residue graph.