## Uses of Interface
org.biojava.bio.program.homologene.OrthoPair

Packages that use OrthoPair
org.biojava.bio.program.homologene: Support classes for Homologene data.

Uses of OrthoPair in org.biojava.bio.program.homologene

Classes in org.biojava.bio.program.homologene that implement OrthoPair
`class` `SimpleOrthoPair` A no-frills implementation of the OrthoPair interface

Methods in org.biojava.bio.program.homologene that return OrthoPair
`OrthoPair` `SimpleHomologeneDB.createOrthoPair(Orthologue first, Orthologue second, SimilarityType type, double percentIdentity)`
`OrthoPair` `HomologeneDB.createOrthoPair(Orthologue first, Orthologue second, SimilarityType type, double percentIdentity)` Create a computed orthology entry.
`OrthoPair` `SimpleHomologeneDB.createOrthoPair(Orthologue first, Orthologue second, String ref)`
`OrthoPair` `HomologeneDB.createOrthoPair(Orthologue first, Orthologue second, String ref)` Create a curated orthology entry.
`OrthoPair` `SimpleOrthoPairSet.Iterator.nextOrthoPair()`
`OrthoPair` `OrthoPairSet.Iterator.nextOrthoPair()`

Methods in org.biojava.bio.program.homologene with parameters of type OrthoPair
`boolean` `OrthoPairFilter.accept(OrthoPair pair)`
`boolean` `OrthoPairFilter.AcceptAll.accept(OrthoPair pair)`
`boolean` `OrthoPairFilter.Not.accept(OrthoPair pair)`
`boolean` `OrthoPairFilter.Or.accept(OrthoPair pair)`
`boolean` `OrthoPairFilter.And.accept(OrthoPair pair)`
`boolean` `OrthoPairFilter.Xor.accept(OrthoPair pair)`
`boolean` `OrthoPairFilter.ByMinIdentity.accept(OrthoPair pair)`
`boolean` `OrthoPairFilter.ByMaxIdentity.accept(OrthoPair pair)`
`boolean` `OrthoPairFilter.BySimilarityType.accept(OrthoPair pair)`
`boolean` `OrthoPairFilter.ByRef.accept(OrthoPair pair)`
`void` `SimpleOrthoPairSet.addOrthoPair(OrthoPair orthology)`
`void` `OrthoPairSet.addOrthoPair(OrthoPair orthology)` adds a specified OrthoPair relationship to this group.
`void` `SimpleOrthoPairSet.removeOrthoPair(OrthoPair orthology)`
`void` `OrthoPairSet.removeOrthoPair(OrthoPair orthology)` removes a specified OrthoPair relationship from this group.