Uses of Enum
org.rcsb.strucmotif.domain.align.AtomPairingScheme

Packages that use AtomPairingScheme

Package	Description
org.rcsb.strucmotif.align
org.rcsb.strucmotif.core
org.rcsb.strucmotif.domain.align
org.rcsb.strucmotif.domain.query

Uses of AtomPairingScheme in org.rcsb.strucmotif.align

Methods in org.rcsb.strucmotif.align with parameters of type AtomPairingScheme

Modifier and Type	Method	Description
AlignmentResult	AlignmentService.align(List<Map<LabelAtomId,float[]>> reference, List<Map<LabelAtomId,float[]>> candidate, AtomPairingScheme atomPairingScheme)	Aligns 2 sets of residues to one another.
AlignmentResult	QuaternionAlignmentService.align(List<Map<LabelAtomId,float[]>> reference, List<Map<LabelAtomId,float[]>> candidate, AtomPairingScheme atomPairingScheme)

Uses of AtomPairingScheme in org.rcsb.strucmotif.core

Methods in org.rcsb.strucmotif.core that return AtomPairingScheme

Modifier and Type	Method	Description
AtomPairingScheme	HitScorer.getAtomPairingScheme()	Returns the used atom pairing scheme (e.g., all-atoms, side-chain, ...)

Constructors in org.rcsb.strucmotif.core with parameters of type AtomPairingScheme

Modifier	Constructor	Description
	HitScorer(List<Map<LabelAtomId,float[]>> queryResidues, AtomPairingScheme atomPairingScheme, AlignmentService alignmentService)	Construct a query-specific hit scorer.

Uses of AtomPairingScheme in org.rcsb.strucmotif.domain.align

Methods in org.rcsb.strucmotif.domain.align that return AtomPairingScheme

Modifier and Type	Method	Description
static AtomPairingScheme	AtomPairingScheme.valueOf(String name)	Returns the enum constant of this type with the specified name.
static AtomPairingScheme[]	AtomPairingScheme.values()	Returns an array containing the constants of this enum type, in the order they are declared.

Constructors in org.rcsb.strucmotif.domain.align with parameters of type AtomPairingScheme

Modifier	Constructor	Description
	AtomCorrespondence(List<Map<LabelAtomId,float[]>> reference, List<Map<LabelAtomId,float[]>> candidate, AtomPairingScheme atomPairingScheme)	Finds the correspondence between reference and candidate.

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

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

Modifier and Type	Method	Description
AtomPairingScheme	Parameters.getAtomPairingScheme()	How are atoms paired?

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

Modifier and Type	Method	Description
QueryBuilder.MandatoryBuilder	QueryBuilder.MandatoryBuilder.atomPairingScheme(AtomPairingScheme atomPairingScheme)	Controls which atoms will be considered for alignment.