Serialized Form

Package de.julielab.gene.candidateretrieval

Class de.julielab.gene.candidateretrieval.BooleanQueryGenerator extends de.julielab.geneexpbase.candidateretrieval.QueryGenerator implements Serializable

Serialized Fields

numAllowedNotToMatch

int numAllowedNotToMatch

occur

org.apache.lucene.search.BooleanClause.Occur occur

Class de.julielab.gene.candidateretrieval.Configuration extends de.julielab.geneexpbase.configuration.Configuration implements Serializable

serialVersionUID:

8883084080210596627L

Class de.julielab.gene.candidateretrieval.GeneRecordHit extends de.julielab.geneexpbase.candidateretrieval.SynHit implements Serializable

Serialized Fields

bioThesaurusNames

String[] bioThesaurusNames

chromosome

String chromosome

descriptions

String[] descriptions

ecNumber

String ecNumber

fullNames

String[] fullNames

geneRifs

String[] geneRifs

goDescriptors

String[] goDescriptors

interactions

String[] interactions

mapLocation

String mapLocation

nameTokens

Set<String> nameTokens

nomenclature

String nomenclature

otherDesignations

String[] otherDesignations

summaries

String[] summaries

symbol

String symbol

synonymField

String synonymField

synonyms

String[] synonyms

synonymSimilarityScore

double synonymSimilarityScore

uniprotNames

String[] uniprotNames

xrefs

String[] xrefs

Class de.julielab.gene.candidateretrieval.GeneRecordQueryGenerator extends de.julielab.geneexpbase.candidateretrieval.QueryGenerator implements Serializable

Serialized Fields

flatDisjunction

boolean flatDisjunction

relaxation

int relaxation

searchExactMatches

boolean searchExactMatches

synonymsQueryGeneratorApprox

GeneRecordSynonymsQueryGenerator synonymsQueryGeneratorApprox

synonymsQueryGeneratorExact

GeneRecordSynonymsQueryGenerator synonymsQueryGeneratorExact

useAlternativeNamesAsRelevanceSignal

boolean useAlternativeNamesAsRelevanceSignal

useAppositionsAsRelevanceSignal

boolean useAppositionsAsRelevanceSignal

useContextGenesAsRelevanceSignal

boolean useContextGenesAsRelevanceSignal

useDisMax

boolean useDisMax

useNpContextAsRelevanceSignal

boolean useNpContextAsRelevanceSignal

useSynonymMatchesAsRelevanceSignal

boolean useSynonymMatchesAsRelevanceSignal

Class de.julielab.gene.candidateretrieval.GeneRecordsEcNumberQueryGenerator extends de.julielab.geneexpbase.candidateretrieval.QueryGenerator implements Serializable

Class de.julielab.gene.candidateretrieval.GeneRecordSynonymsQueryGenerator extends de.julielab.geneexpbase.candidateretrieval.QueryGenerator implements Serializable

Serialized Fields

exact

boolean exact

fieldsToSearch

String[] fieldsToSearch

tokenOccur

org.apache.lucene.search.BooleanClause.Occur tokenOccur

Class de.julielab.gene.candidateretrieval.NGramQueryGenerator extends de.julielab.geneexpbase.candidateretrieval.QueryGenerator implements Serializable

Serialized Fields

max

int max

min

int min

Package de.julielab.gene.candidateretrieval.scoring

Class de.julielab.gene.candidateretrieval.scoring.MaxEntScorerFeaturePipe extends cc.mallet.pipe.Pipe implements Serializable

serialVersionUID:

1L

Serialized Fields

ALPHA

String ALPHA

CHAR

String CHAR

debug

boolean debug

GREEK

String GREEK

GREEK_ALPHA

String GREEK_ALPHA

jaroSim

de.julielab.geneexpbase.scoring.TokenJaroSimilarity jaroSim

lexicalize

boolean lexicalize

MODIFIER

String MODIFIER

MOL_WEIGHT

String MOL_WEIGHT

NON_DESCRIPTIVE

String NON_DESCRIPTIVE

NUMBER

String NUMBER

ONE

String ONE