Package ubic.gemma.core.ontology.providers

Class GeneOntologyUtils

java.lang.Object

ubic.gemma.core.ontology.providers.GeneOntologyUtils

public class GeneOntologyUtils
extends Object

Constructor Summary

Constructors

Constructor	Description
GeneOntologyUtils()

Method Summary

Modifier and Type	Method	Description
static String	asRegularGoId(String uri)	Convert various GO IDs formats to the usual format, e.g., GO:0039392.
static String	asRegularGoId(OntologyTerm term)	Convert various GO IDs formats to the usual format, e.g., GO:0039392.
static String	asRegularGoId(Characteristic c)	Convert a characteristic to a regular GO ID.
static boolean	isGoId(String s)	Check if a given string is a GO ID.

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Details

GeneOntologyUtils

public GeneOntologyUtils()

Method Details

isGoId

public static boolean isGoId(String s)

Check if a given string is a GO ID.

asRegularGoId

@Nullable
public static String asRegularGoId(OntologyTerm term)

Convert various GO IDs formats to the usual format, e.g., GO:0039392.

Parameters:

term - ontology term

Returns:

Usual formatted GO id, e.g., GO:0039392 or null for a free-text term

asRegularGoId

@Nullable
public static String asRegularGoId(Characteristic c)

Convert a characteristic to a regular GO ID.

asRegularGoId

@Nullable
public static String asRegularGoId(String uri)

Convert various GO IDs formats to the usual format, e.g., GO:0039392.

Returns:

a regular GO ID or null if the input is null or not a reckognized GO ID format