jar

de.julielab : gene-mapper-experimental-base

Maven & Gradle

Dec 03, 2022

This project has a lot of business classes to work with genes and related named entities. Genes are part of a GeneDocument and may have gold IDs as well as mapped/predicted IDs. Another large part are species because most (all?) gene ID databases are species specific. So there are also classes or members to represent species mentions and the assignment of species IDs (taxonomy IDs) to genes. There is little to no business logic herein. This project is only useful as building block in other projects dealing with species assignment, gene ID mapping or similar efforts.

Table Of Contents

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1.0.x

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com.lahodiuk.ahocorasick

├─ com.lahodiuk.ahocorasick.AhoCorasickOptimized.class - [JAR]

de.julielab.geneexpbase.hpo

├─ de.julielab.geneexpbase.hpo.CachedModel.class - [JAR]

├─ de.julielab.geneexpbase.hpo.HPOEvaluationException.class - [JAR]

├─ de.julielab.geneexpbase.hpo.HpoCorpusRegistry.class - [JAR]

├─ de.julielab.geneexpbase.hpo.HpoException.class - [JAR]

├─ de.julielab.geneexpbase.hpo.HpoInstance.class - [JAR]

├─ de.julielab.geneexpbase.hpo.HpoRoute.class - [JAR]

├─ de.julielab.geneexpbase.hpo.HttpParamOptClient.class - [JAR]

├─ de.julielab.geneexpbase.hpo.HttpParamOptServer.class - [JAR]

├─ de.julielab.geneexpbase.hpo.InspectionFilePrinter.class - [JAR]

├─ de.julielab.geneexpbase.hpo.InvalidConfigurationException.class - [JAR]

├─ de.julielab.geneexpbase.hpo.SplitType.class - [JAR]

de.julielab.geneexpbase.services

├─ de.julielab.geneexpbase.services.CacheService.class - [JAR]

├─ de.julielab.geneexpbase.services.ShutdownRequiring.class - [JAR]

├─ de.julielab.geneexpbase.services.ShutdownRequiringExecutorService.class - [JAR]

com.wcohen.ss

├─ com.wcohen.ss.SerializableTFIDF.class - [JAR]

de.julielab.geneexpbase.classification

├─ de.julielab.geneexpbase.classification.FeatureUtils.class - [JAR]

├─ de.julielab.geneexpbase.classification.MinMaxScalingStats.class - [JAR]

├─ de.julielab.geneexpbase.classification.SVMClassifier.class - [JAR]

├─ de.julielab.geneexpbase.classification.StandardizationStats.class - [JAR]

de.julielab.geneexpbase

├─ de.julielab.geneexpbase.AhoCorasickLongestMatchCallback.class - [JAR]

├─ de.julielab.geneexpbase.CandidateFilter.class - [JAR]

├─ de.julielab.geneexpbase.GeneExpException.class - [JAR]

├─ de.julielab.geneexpbase.GeneExpRuntimeException.class - [JAR]

├─ de.julielab.geneexpbase.GeneIdCorrectness.class - [JAR]

├─ de.julielab.geneexpbase.TermNormalizer.class - [JAR]

de.julielab.geneexpbase.scoring

├─ de.julielab.geneexpbase.scoring.JaccardScorer.class - [JAR]

├─ de.julielab.geneexpbase.scoring.JaroWinklerScorer.class - [JAR]

├─ de.julielab.geneexpbase.scoring.LevenshteinScorer.class - [JAR]

├─ de.julielab.geneexpbase.scoring.NeedlemanWunschScorer.class - [JAR]

├─ de.julielab.geneexpbase.scoring.Scorer.class - [JAR]

├─ de.julielab.geneexpbase.scoring.ScorerAvg.class - [JAR]

├─ de.julielab.geneexpbase.scoring.SimpleScorer.class - [JAR]

├─ de.julielab.geneexpbase.scoring.SmithWatermanScorer.class - [JAR]

├─ de.julielab.geneexpbase.scoring.TFIDFScorer.class - [JAR]

├─ de.julielab.geneexpbase.scoring.TFIDFUtils.class - [JAR]

├─ de.julielab.geneexpbase.scoring.TokenJaroSimilarity.class - [JAR]

├─ de.julielab.geneexpbase.scoring.TokenJaroSimilarityScorer.class - [JAR]

com.wcohen.ss.tokens

├─ com.wcohen.ss.tokens.SerializableSimpleTokenizer.class - [JAR]

de.julielab.geneexpbase.configuration

├─ de.julielab.geneexpbase.configuration.Configuration.class - [JAR]

├─ de.julielab.geneexpbase.configuration.Parameters.class - [JAR]

de.julielab.geneexpbase.resources

├─ de.julielab.geneexpbase.resources.SpecialistLexiconGreekDictCreator.class - [JAR]

de.julielab.geneexpbase.genemodel

├─ de.julielab.geneexpbase.genemodel.Acronym.class - [JAR]

├─ de.julielab.geneexpbase.genemodel.AcronymLongform.class - [JAR]

├─ de.julielab.geneexpbase.genemodel.Apposition.class - [JAR]

├─ de.julielab.geneexpbase.genemodel.CoreferenceExpression.class - [JAR]

├─ de.julielab.geneexpbase.genemodel.CoreferenceSet.class - [JAR]

├─ de.julielab.geneexpbase.genemodel.DictionaryGeneIdRecord.class - [JAR]

├─ de.julielab.geneexpbase.genemodel.DictionaryGeneIdRecordItem.class - [JAR]

├─ de.julielab.geneexpbase.genemodel.DocumentMappingResult.class - [JAR]

├─ de.julielab.geneexpbase.genemodel.GeneDocument.class - [JAR]

├─ de.julielab.geneexpbase.genemodel.GeneEmbeddingCentroid.class - [JAR]

├─ de.julielab.geneexpbase.genemodel.GeneIdCandidate.class - [JAR]

├─ de.julielab.geneexpbase.genemodel.GeneLocation.class - [JAR]

├─ de.julielab.geneexpbase.genemodel.GeneMention.class - [JAR]

├─ de.julielab.geneexpbase.genemodel.GeneName.class - [JAR]

├─ de.julielab.geneexpbase.genemodel.GeneOrthologs.class - [JAR]

├─ de.julielab.geneexpbase.genemodel.GeneSet.class - [JAR]

├─ de.julielab.geneexpbase.genemodel.GeneSets.class - [JAR]

├─ de.julielab.geneexpbase.genemodel.GeneSpeciesOccurrence.class - [JAR]

├─ de.julielab.geneexpbase.genemodel.MentionMappingResult.class - [JAR]

├─ de.julielab.geneexpbase.genemodel.MeshHeading.class - [JAR]

├─ de.julielab.geneexpbase.genemodel.OrthologyRecord.class - [JAR]

├─ de.julielab.geneexpbase.genemodel.PosTag.class - [JAR]

├─ de.julielab.geneexpbase.genemodel.SpeciesCandidates.class - [JAR]

├─ de.julielab.geneexpbase.genemodel.SpeciesMention.class - [JAR]

├─ de.julielab.geneexpbase.genemodel.Specifier.class - [JAR]

├─ de.julielab.geneexpbase.genemodel.SpecifierType.class - [JAR]

de.julielab.geneexpbase.classification.svm

├─ de.julielab.geneexpbase.classification.svm.MalletTest.class - [JAR]

├─ de.julielab.geneexpbase.classification.svm.SVM.class - [JAR]

├─ de.julielab.geneexpbase.classification.svm.SVMModel.class - [JAR]

├─ de.julielab.geneexpbase.classification.svm.SVMTrainData.class - [JAR]

├─ de.julielab.geneexpbase.classification.svm.SVMTrainOptions.class - [JAR]

de.julielab.geneexpbase.candidateretrieval

├─ de.julielab.geneexpbase.candidateretrieval.CandidateCacheKey.class - [JAR]

├─ de.julielab.geneexpbase.candidateretrieval.CandidateRetrieval.class - [JAR]

├─ de.julielab.geneexpbase.candidateretrieval.GeneCandidateRetrievalException.class - [JAR]

├─ de.julielab.geneexpbase.candidateretrieval.QueryGenerator.class - [JAR]

├─ de.julielab.geneexpbase.candidateretrieval.SynHit.class - [JAR]

de.julielab.geneexpbase.data

├─ de.julielab.geneexpbase.data.CorpusReader.class - [JAR]

├─ de.julielab.geneexpbase.data.DocumentLoader.class - [JAR]

├─ de.julielab.geneexpbase.data.DocumentLoadingException.class - [JAR]

├─ de.julielab.geneexpbase.data.DocumentSourceFileRegistry.class - [JAR]

├─ de.julielab.geneexpbase.data.DocumentSourceFiles.class - [JAR]

├─ de.julielab.geneexpbase.data.GeneInformation.class - [JAR]

├─ de.julielab.geneexpbase.data.UnknownCorpusException.class - [JAR]

de.julielab.geneexpbase.ioc

├─ de.julielab.geneexpbase.ioc.BaseModule.class - [JAR]

├─ de.julielab.geneexpbase.ioc.LifeCycleListener.class - [JAR]

├─ de.julielab.geneexpbase.ioc.ServicesShutdownHub.class - [JAR]

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