Uses of Interface
org.biojava.bio.program.homologene.OrthoPairSet

Packages that use OrthoPairSet

Package	Description
org.biojava.bio.program.homologene	Support classes for Homologene data.

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

Classes in org.biojava.bio.program.homologene that implement OrthoPairSet

Modifier and Type	Class and Description
class	AbstractOrthoPairSet represents the Homologene Group.
class	SimpleOrthoPairSet a no-frills implementation of a Homologene Group

Methods in org.biojava.bio.program.homologene that return OrthoPairSet

Modifier and Type	Method and Description
OrthoPairSet	SimpleHomologeneDB.createOrthoPairSet()
OrthoPairSet	HomologeneDB.createOrthoPairSet() Create a Homologene Group.
OrthoPairSet	OrthoPairSet.filter(OrthoPairFilter filter) filter an OrthoPairSet
OrthoPairSet	AbstractOrthoPairSet.filter(OrthoPairFilter filter)
OrthoPairSet	SimpleOrthoPairCollection.Iterator.nextSet()
OrthoPairSet	OrthoPairCollection.Iterator.nextSet() returns the next OrthoPairSet

Methods in org.biojava.bio.program.homologene with parameters of type OrthoPairSet

Modifier and Type	Method and Description
boolean	OrthoPairSetFilter.accept(OrthoPairSet group)
boolean	OrthoPairSetFilter.AcceptAll.accept(OrthoPairSet group)
boolean	OrthoPairSetFilter.Not.accept(OrthoPairSet group)
boolean	OrthoPairSetFilter.Or.accept(OrthoPairSet group)
boolean	OrthoPairSetFilter.And.accept(OrthoPairSet group)
boolean	OrthoPairSetFilter.Xor.accept(OrthoPairSet group)
boolean	OrthoPairSetFilter.ByTaxon.accept(OrthoPairSet group)
boolean	OrthoPairSetFilter.ByMinIdentity.accept(OrthoPairSet group)
boolean	OrthoPairSetFilter.AllPairsInCollection.accept(OrthoPairSet group)
boolean	OrthoPairSetFilter.SomePairsInCollection.accept(OrthoPairSet group)
void	SimpleOrthoPairCollection.add(OrthoPairSet group)
void	OrthoPairCollection.add(OrthoPairSet group)
abstract void	AbstractOrthoPairCollection.add(OrthoPairSet group)
boolean	SimpleOrthoPairCollection.contains(OrthoPairSet group)
boolean	OrthoPairCollection.contains(OrthoPairSet group)
abstract boolean	AbstractOrthoPairCollection.contains(OrthoPairSet group)