owltools.gaf.eco

Interface TraversingEcoMapper

All Superinterfaces:

EcoMapper

All Known Implementing Classes:

TraversingEcoMapperImpl

public interface TraversingEcoMapper
extends EcoMapper

Field Summary

Fields inherited from interface owltools.gaf.eco.EcoMapper

ECO_MAPPING_PURL, ECO_PURL, ECO_PURL_IRI

Method Summary

Methods

Modifier and Type	Method and Description
void	dispose() Dispose this instance
Set<String>	getAllValidEvidenceIds(Set<String> codes, boolean includeChildren) Get all strings which are valid identifiers for the given evidence codes.
Set<String>	getAllValidEvidenceIds(String code, boolean includeChildren) Get all strings which are valid identifiers for a given evidence code.
Set<org.semanticweb.owlapi.model.OWLClass>	getAncestors(org.semanticweb.owlapi.model.OWLClass source, boolean reflexive) Traversing method for the ECO ontology.
Set<org.semanticweb.owlapi.model.OWLClass>	getAncestors(Set<org.semanticweb.owlapi.model.OWLClass> sources, boolean reflexive) Traversing method for the ECO ontology.
Set<org.semanticweb.owlapi.model.OWLClass>	getDescendents(org.semanticweb.owlapi.model.OWLClass source, boolean reflexive) Traversing method for the ECO ontology.
Set<org.semanticweb.owlapi.model.OWLClass>	getDescendents(Set<org.semanticweb.owlapi.model.OWLClass> sources, boolean reflexive) Traversing method for the ECO ontology.

Methods inherited from interface owltools.gaf.eco.EcoMapper

getAllEcoClassesForCode, getCodesForEcoClasses, getEcoClassForCode, getEcoClassForCode, isGoEvidenceCode

Method Detail

getAncestors

Set<org.semanticweb.owlapi.model.OWLClass> getAncestors(Set<org.semanticweb.owlapi.model.OWLClass> sources,
                                                      boolean reflexive)

Traversing method for the ECO ontology.

Parameters:

sources -

reflexive -

Returns:

set of super classes

getAncestors

Set<org.semanticweb.owlapi.model.OWLClass> getAncestors(org.semanticweb.owlapi.model.OWLClass source,
                                                      boolean reflexive)

Traversing method for the ECO ontology.

Parameters:

source -

reflexive -

Returns:

set of super classes

getDescendents

Set<org.semanticweb.owlapi.model.OWLClass> getDescendents(Set<org.semanticweb.owlapi.model.OWLClass> sources,
                                                        boolean reflexive)

Traversing method for the ECO ontology.

Parameters:

sources -

reflexive -

Returns:

set of sub classes

getDescendents

Set<org.semanticweb.owlapi.model.OWLClass> getDescendents(org.semanticweb.owlapi.model.OWLClass source,
                                                        boolean reflexive)

Traversing method for the ECO ontology.

Parameters:

source -

reflexive -

Returns:

set of sub classes

getAllValidEvidenceIds

Set<String> getAllValidEvidenceIds(String code,
                                 boolean includeChildren)

Get all strings which are valid identifiers for a given evidence code. This includes, the the codes itself and valid OBO-style identifier from ECO.

Parameters:

code -

includeChildren -

Returns:

set of ids

getAllValidEvidenceIds

Set<String> getAllValidEvidenceIds(Set<String> codes,
                                 boolean includeChildren)

Get all strings which are valid identifiers for the given evidence codes. This includes, the the codes itself and valid OBO-style identifier from ECO.

Parameters:

codes -

includeChildren -

Returns:

set of ids

dispose

void dispose()

Dispose this instance