org.biojava.bio.program.homologene

Interface OrthologueSet

All Known Implementing Classes:

AbstractOrthologueSet, SimpleOrthologueSet

public interface OrthologueSet

Interface for classes that store and manipulate orthologues.

You cannot create Orthologues here, just work with them.

Author:

David Huen * @author Matthew Pocock

Nested Class Summary

Nested Classes

Modifier and Type	Interface and Description
static interface	OrthologueSet.Iterator An iterator for the contents of an OrthologueSet.

Field Summary

Fields

Modifier and Type	Field and Description
static ChangeType	MODIFY

Method Summary

Modifier and Type	Method and Description
void	addOrthologue(Orthologue ortho) Add an orthologue to the set.
OrthologueSet	filter(OrthologueFilter filter) Filter the contents of a set.
Orthologue	getOrthologue(String homologeneID)
OrthologueSet.Iterator	iterator() Return an iterator to the contents of the set.
void	removeOrthologue(Orthologue ortho) Remove an orthologue from the set.

Field Detail

MODIFY

static final ChangeType MODIFY

Method Detail

getOrthologue

Orthologue getOrthologue(String homologeneID)

addOrthologue

void addOrthologue(Orthologue ortho)
            throws ChangeVetoException

Add an orthologue to the set.

Throws:

ChangeVetoException

removeOrthologue

void removeOrthologue(Orthologue ortho)
               throws ChangeVetoException

Remove an orthologue from the set.

Throws:

ChangeVetoException

iterator

OrthologueSet.Iterator iterator()

Return an iterator to the contents of the set.

filter

OrthologueSet filter(OrthologueFilter filter)

Filter the contents of a set.