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## 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.

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