org.molgenis.data.annotation.core.entity.impl.hpo

Class HPOAnnotator

java.lang.Object

org.molgenis.data.annotation.core.entity.impl.hpo.HPOAnnotator

All Implemented Interfaces:

AnnotatorConfig

@Configuration
public class HPOAnnotator
extends Object
implements AnnotatorConfig

Typical HPO terms for a gene dataType (already present via SnpEff) Source: http://compbio.charite.de/hudson/job/hpo. annotations.monthly/lastStableBuild/artifact/annotation/ ALL_SOURCES_TYPICAL_FEATURES_diseases_to_genes_to_phenotypes .txt

Add resource file path to RuntimeProperty 'hpo_location'

Field Summary

Fields

Modifier and Type	Field and Description
static String	HPO_IDS
static String	HPO_TERMS
static String	NAME

Constructor Summary

Constructors

Constructor and Description
HPOAnnotator()

Method Summary

Modifier and Type	Method and Description
Attribute	getIdsAttr()
Attribute	getTermsAttr()
RepositoryAnnotator	hpo()
Resource	hpoResource()
void	init()

Methods inherited from class java.lang.Object

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

Field Detail

NAME

public static final String NAME

See Also:

Constant Field Values

HPO_IDS

public static final String HPO_IDS

See Also:

Constant Field Values

HPO_TERMS

public static final String HPO_TERMS

See Also:

Constant Field Values

Constructor Detail

HPOAnnotator

public HPOAnnotator()

Method Detail

hpo

@Bean
public RepositoryAnnotator hpo()

getIdsAttr

public Attribute getIdsAttr()

getTermsAttr

public Attribute getTermsAttr()

init

public void init()

Specified by:

init in interface AnnotatorConfig

hpoResource

@Bean
public Resource hpoResource()