C D E G I L N O P Q R S

C

CONSTRUCT_URI - Static variable in class org.eaglei.search.provider.ncbi.probe.NCBIProbeSearchProvider

count(SearchCountRequest) - Method in class org.eaglei.search.provider.ncbi.NCBISearchProvider

count(SearchCountRequest) - Method in class org.eaglei.search.provider.ncbi.NCBISearchProviderSet

createSearchResultForDocSummary(NCBIEUtils.DocSummary) - Method in class org.eaglei.search.provider.ncbi.gene.NCBIGeneSearchProvider

createSearchResultForDocSummary(NCBIEUtils.DocSummary) - Method in class org.eaglei.search.provider.ncbi.mesh.NCBIMeSHSearchProvider

createSearchResultForDocSummary(NCBIEUtils.DocSummary) - Method in class org.eaglei.search.provider.ncbi.NCBISearchProvider

createSearchResultForDocSummary(NCBIEUtils.DocSummary) - Method in class org.eaglei.search.provider.ncbi.probe.NCBIProbeSearchProvider

createSearchResultForDocSummary(NCBIEUtils.DocSummary) - Method in class org.eaglei.search.provider.ncbi.pubmed.NCBIPubMedSearchProvider

createSearchResultForDocSummary(NCBIEUtils.DocSummary) - Method in class org.eaglei.search.provider.ncbi.taxonomy.NCBITaxonomySearchProvider

D

dbProvider - Variable in class org.eaglei.search.provider.ncbi.NCBISearchProvider

DEBUG - Static variable in class org.eaglei.search.provider.ncbi.NCBISearchProvider

DISEASE_URI - Static variable in class org.eaglei.search.provider.ncbi.mesh.NCBIMeSHSearchProvider

DOCUMENT_URI - Static variable in class org.eaglei.search.provider.ncbi.pubmed.NCBIPubMedSearchProvider

E

eagleiOntModel - Variable in class org.eaglei.search.provider.ncbi.NCBISearchProvider

G

GENE_URI - Static variable in class org.eaglei.search.provider.ncbi.gene.NCBIGeneSearchProvider

getQuery(SearchRequest) - Method in class org.eaglei.search.provider.ncbi.gene.NCBIGeneSearchProvider

getQuery(SearchRequest) - Method in class org.eaglei.search.provider.ncbi.mesh.NCBIMeSHSearchProvider

getQuery(SearchRequest) - Method in class org.eaglei.search.provider.ncbi.NCBISearchProvider

getQuery(SearchRequest, boolean, Set<EIURI>, boolean) - Method in class org.eaglei.search.provider.ncbi.NCBISearchProvider

Generic query generation logic

getQuery(SearchRequest) - Method in class org.eaglei.search.provider.ncbi.probe.NCBIProbeSearchProvider

getQuery(SearchRequest) - Method in class org.eaglei.search.provider.ncbi.pubmed.NCBIPubMedSearchProvider

getQuery(SearchRequest) - Method in class org.eaglei.search.provider.ncbi.taxonomy.NCBITaxonomySearchProvider

getType() - Method in class org.eaglei.search.provider.ncbi.gene.NCBIGeneSearchProvider

getType() - Method in class org.eaglei.search.provider.ncbi.mesh.NCBIMeSHSearchProvider

getType() - Method in class org.eaglei.search.provider.ncbi.NCBISearchProvider

getType(SearchRequest) - Static method in class org.eaglei.search.provider.ncbi.NCBISearchProvider

Gets the type from a SearchRequest.

getType() - Method in class org.eaglei.search.provider.ncbi.probe.NCBIProbeSearchProvider

getType() - Method in class org.eaglei.search.provider.ncbi.pubmed.NCBIPubMedSearchProvider

getType() - Method in class org.eaglei.search.provider.ncbi.taxonomy.NCBITaxonomySearchProvider

I

init() - Method in class org.eaglei.search.provider.ncbi.NCBISearchProvider

init() - Method in class org.eaglei.search.provider.ncbi.NCBISearchProviderSet

institutionRegistry - Variable in class org.eaglei.search.provider.ncbi.NCBISearchProvider

isType(EIURI, EIURI) - Method in class org.eaglei.search.provider.ncbi.NCBISearchProvider

Checks, with inference, if a given type is of another type.

L

logger - Static variable in class org.eaglei.search.provider.ncbi.NCBISearchProvider

N

NCBIGeneSearchProvider - Class in org.eaglei.search.provider.ncbi.gene

Subclass of NCBISearchProvider that wraps an NCBIGeneProvider.

NCBIGeneSearchProvider(EIOntModel, InstitutionRegistry) - Constructor for class org.eaglei.search.provider.ncbi.gene.NCBIGeneSearchProvider

NCBIMeSHSearchProvider - Class in org.eaglei.search.provider.ncbi.mesh

Subclass of NCBISearchProvider that wraps an NCBIMeSHProvider.

NCBIMeSHSearchProvider(EIOntModel, InstitutionRegistry) - Constructor for class org.eaglei.search.provider.ncbi.mesh.NCBIMeSHSearchProvider

NCBIProbeSearchProvider - Class in org.eaglei.search.provider.ncbi.probe

Subclass of NCBISearchProvider that wraps an NCBIProbeProvider.

NCBIProbeSearchProvider(EIOntModel, InstitutionRegistry) - Constructor for class org.eaglei.search.provider.ncbi.probe.NCBIProbeSearchProvider

NCBIPubMedSearchProvider - Class in org.eaglei.search.provider.ncbi.pubmed

Subclass of NCBISearchProvider that wraps an NCBIPubMedProvider.

NCBIPubMedSearchProvider(EIOntModel, InstitutionRegistry) - Constructor for class org.eaglei.search.provider.ncbi.pubmed.NCBIPubMedSearchProvider

NCBISearchProvider - Class in org.eaglei.search.provider.ncbi

Abstract implementation of the eagle-i SearchProvider interface that wraps an NCBIDBProvider.

NCBISearchProvider(NCBIDBProvider, EIOntModel, InstitutionRegistry) - Constructor for class org.eaglei.search.provider.ncbi.NCBISearchProvider

Creates a new NCBIDBProvider that executes queries against NCBI.

NCBISearchProviderSet - Class in org.eaglei.search.provider.ncbi

SearchProvider implementation for querying multiple NCBISearchProviders

NCBISearchProviderSet(EIOntModel, InstitutionRegistry) - Constructor for class org.eaglei.search.provider.ncbi.NCBISearchProviderSet

Creates a new SearchProvider that executes queries against NCBI.

NCBITaxonomySearchProvider - Class in org.eaglei.search.provider.ncbi.taxonomy

Subclass of NCBISearchProvider that wraps an NCBITaxonomyProvider.

NCBITaxonomySearchProvider(EIOntModel, InstitutionRegistry) - Constructor for class org.eaglei.search.provider.ncbi.taxonomy.NCBITaxonomySearchProvider

O

org.eaglei.search.provider.ncbi - package org.eaglei.search.provider.ncbi

org.eaglei.search.provider.ncbi.gene - package org.eaglei.search.provider.ncbi.gene

org.eaglei.search.provider.ncbi.mesh - package org.eaglei.search.provider.ncbi.mesh

org.eaglei.search.provider.ncbi.probe - package org.eaglei.search.provider.ncbi.probe

org.eaglei.search.provider.ncbi.pubmed - package org.eaglei.search.provider.ncbi.pubmed

org.eaglei.search.provider.ncbi.taxonomy - package org.eaglei.search.provider.ncbi.taxonomy

ORGANISM_URI - Static variable in class org.eaglei.search.provider.ncbi.taxonomy.NCBITaxonomySearchProvider

P

PUBLICATION_URI - Static variable in class org.eaglei.search.provider.ncbi.pubmed.NCBIPubMedSearchProvider

Q

query(SearchRequest) - Method in class org.eaglei.search.provider.ncbi.NCBISearchProvider

query(SearchRequest) - Method in class org.eaglei.search.provider.ncbi.NCBISearchProviderSet

R

REAGENT_URI - Static variable in class org.eaglei.search.provider.ncbi.probe.NCBIProbeSearchProvider

S

shouldAddResults(SearchRequest) - Method in class org.eaglei.search.provider.ncbi.gene.NCBIGeneSearchProvider

shouldAddResults(SearchRequest) - Method in class org.eaglei.search.provider.ncbi.mesh.NCBIMeSHSearchProvider

shouldAddResults(SearchRequest) - Method in class org.eaglei.search.provider.ncbi.NCBISearchProvider

shouldAddResults(SearchRequest) - Method in class org.eaglei.search.provider.ncbi.probe.NCBIProbeSearchProvider

shouldAddResults(SearchRequest) - Method in class org.eaglei.search.provider.ncbi.pubmed.NCBIPubMedSearchProvider

shouldAddResults(SearchRequest) - Method in class org.eaglei.search.provider.ncbi.taxonomy.NCBITaxonomySearchProvider

C D E G I L N O P Q R S