org.biojava : core

org.biojava.bio.seq.db.flat

├─ org.biojava.bio.seq.db.flat.FlatSequenceDB.class - [JAR]

├─ org.biojava.bio.seq.db.flat.FlatSequenceDBProvider.class - [JAR]

org.biojava.bio.program.unigene

├─ org.biojava.bio.program.unigene.FlatFileUnigeneDB.class - [JAR]

├─ org.biojava.bio.program.unigene.FlatFileUnigeneFactory.class - [JAR]

├─ org.biojava.bio.program.unigene.SQLUnigeneDB.class - [JAR]

├─ org.biojava.bio.program.unigene.SQLUnigeneFactory.class - [JAR]

├─ org.biojava.bio.program.unigene.UnigeneCluster.class - [JAR]

├─ org.biojava.bio.program.unigene.UnigeneDB.class - [JAR]

├─ org.biojava.bio.program.unigene.UnigeneFactory.class - [JAR]

├─ org.biojava.bio.program.unigene.UnigeneTools.class - [JAR]

org.biojava.bio.alignment

├─ org.biojava.bio.alignment.Alignment.class - [JAR]

├─ org.biojava.bio.alignment.SimpleAlignment.class - [JAR]

org.biojava.stats.svm.tools

├─ org.biojava.stats.svm.tools.ClassifierExample.class - [JAR]

├─ org.biojava.stats.svm.tools.Classify.class - [JAR]

├─ org.biojava.stats.svm.tools.SVM_Light.class - [JAR]

├─ org.biojava.stats.svm.tools.SuffixTreeKernel.class - [JAR]

├─ org.biojava.stats.svm.tools.Train.class - [JAR]

├─ org.biojava.stats.svm.tools.TrainRegression.class - [JAR]

org.biojavax.ga.util

├─ org.biojavax.ga.util.GATools.class - [JAR]

├─ org.biojavax.ga.util.WeightedSet.class - [JAR]

org.biojava.utils.regex

├─ org.biojava.utils.regex.Matcher.class - [JAR]

├─ org.biojava.utils.regex.Pattern.class - [JAR]

├─ org.biojava.utils.regex.PatternChecker.class - [JAR]

├─ org.biojava.utils.regex.PatternFactory.class - [JAR]

├─ org.biojava.utils.regex.RegexException.class - [JAR]

├─ org.biojava.utils.regex.Search.class - [JAR]

org.biojava.utils.automata

├─ org.biojava.utils.automata.ArrayStateMachineToolkit.class - [JAR]

├─ org.biojava.utils.automata.AutomatonException.class - [JAR]

├─ org.biojava.utils.automata.DfaBuilder.class - [JAR]

├─ org.biojava.utils.automata.FiniteAutomaton.class - [JAR]

├─ org.biojava.utils.automata.Nfa.class - [JAR]

├─ org.biojava.utils.automata.NfaBuilder.class - [JAR]

├─ org.biojava.utils.automata.NfaSubModel.class - [JAR]

├─ org.biojava.utils.automata.PatternBlitz.class - [JAR]

├─ org.biojava.utils.automata.PatternListener.class - [JAR]

├─ org.biojava.utils.automata.PatternMaker.class - [JAR]

├─ org.biojava.utils.automata.StateMachineFactory.class - [JAR]

├─ org.biojava.utils.automata.StateMachineInstance.class - [JAR]

├─ org.biojava.utils.automata.StateMachineToolkit.class - [JAR]

org.biojava.bio.seq

├─ org.biojava.bio.seq.AbstractFeatureHolder.class - [JAR]

├─ org.biojava.bio.seq.AcceptAllFilter.class - [JAR]

├─ org.biojava.bio.seq.AcceptNoneFilter.class - [JAR]

├─ org.biojava.bio.seq.ByHierarchy.class - [JAR]

├─ org.biojava.bio.seq.ByLocationMinMaxComparator.class - [JAR]

├─ org.biojava.bio.seq.ByLocationMinMaxFeatureComparator.class - [JAR]

├─ org.biojava.bio.seq.CircularView.class - [JAR]

├─ org.biojava.bio.seq.ComponentFeature.class - [JAR]

├─ org.biojava.bio.seq.DNATools.class - [JAR]

├─ org.biojava.bio.seq.Down.class - [JAR]

├─ org.biojava.bio.seq.Feature.class - [JAR]

├─ org.biojava.bio.seq.FeatureFilter.class - [JAR]

├─ org.biojava.bio.seq.FeatureHolder.class - [JAR]

├─ org.biojava.bio.seq.FeatureHolderUtils.class - [JAR]

├─ org.biojava.bio.seq.FeatureRealizer.class - [JAR]

├─ org.biojava.bio.seq.FeatureTypes.class - [JAR]

├─ org.biojava.bio.seq.FilterUtils.class - [JAR]

├─ org.biojava.bio.seq.Frame.class - [JAR]

├─ org.biojava.bio.seq.FramedFeature.class - [JAR]

├─ org.biojava.bio.seq.GappedSequence.class - [JAR]

├─ org.biojava.bio.seq.GeneticCodes.class - [JAR]

├─ org.biojava.bio.seq.IsLeaf.class - [JAR]

├─ org.biojava.bio.seq.IsTopLevel.class - [JAR]

├─ org.biojava.bio.seq.LazyFeatureHolder.class - [JAR]

├─ org.biojava.bio.seq.MergeFeatureHolder.class - [JAR]

├─ org.biojava.bio.seq.NewSimpleAssembly.class - [JAR]

├─ org.biojava.bio.seq.NucleotideTools.class - [JAR]

├─ org.biojava.bio.seq.OptimizableFilter.class - [JAR]

├─ org.biojava.bio.seq.ProteinTools.class - [JAR]

├─ org.biojava.bio.seq.RNATools.class - [JAR]

├─ org.biojava.bio.seq.RealizingFeatureHolder.class - [JAR]

├─ org.biojava.bio.seq.RemoteFeature.class - [JAR]

├─ org.biojava.bio.seq.Sequence.class - [JAR]

├─ org.biojava.bio.seq.SequenceAnnotator.class - [JAR]

├─ org.biojava.bio.seq.SequenceFactory.class - [JAR]

├─ org.biojava.bio.seq.SequenceIterator.class - [JAR]

├─ org.biojava.bio.seq.SequenceTools.class - [JAR]

├─ org.biojava.bio.seq.SimpleAssembly.class - [JAR]

├─ org.biojava.bio.seq.SimpleComponentFeature.class - [JAR]

├─ org.biojava.bio.seq.SimpleFeatureHolder.class - [JAR]

├─ org.biojava.bio.seq.SimpleFeatureRealizer.class - [JAR]

├─ org.biojava.bio.seq.StrandParser.class - [JAR]

├─ org.biojava.bio.seq.StrandedFeature.class - [JAR]

├─ org.biojava.bio.seq.Up.class - [JAR]

org.biojava.bio.program.ssaha

├─ org.biojava.bio.program.ssaha.CompactedDataStore.class - [JAR]

├─ org.biojava.bio.program.ssaha.CompactedDataStoreFactory.class - [JAR]

├─ org.biojava.bio.program.ssaha.DataStore.class - [JAR]

├─ org.biojava.bio.program.ssaha.DataStoreFactory.class - [JAR]

├─ org.biojava.bio.program.ssaha.HitMerger.class - [JAR]

├─ org.biojava.bio.program.ssaha.MappedDataStore.class - [JAR]

├─ org.biojava.bio.program.ssaha.MappedDataStoreFactory.class - [JAR]

├─ org.biojava.bio.program.ssaha.NIODataStore.class - [JAR]

├─ org.biojava.bio.program.ssaha.NIODataStoreFactory.class - [JAR]

├─ org.biojava.bio.program.ssaha.SearchException.class - [JAR]

├─ org.biojava.bio.program.ssaha.SearchListener.class - [JAR]

├─ org.biojava.bio.program.ssaha.SequenceStreamer.class - [JAR]

org.biojavax.ontology

├─ org.biojavax.ontology.ComparableOntology.class - [JAR]

├─ org.biojavax.ontology.ComparableTerm.class - [JAR]

├─ org.biojavax.ontology.ComparableTriple.class - [JAR]

├─ org.biojavax.ontology.SimpleComparableOntology.class - [JAR]

├─ org.biojavax.ontology.SimpleComparableTerm.class - [JAR]

├─ org.biojavax.ontology.SimpleComparableTriple.class - [JAR]

org.biojava.utils

├─ org.biojava.utils.AbstractChangeable.class - [JAR]

├─ org.biojava.utils.ActivityListener.class - [JAR]

├─ org.biojava.utils.AssertionFailure.class - [JAR]

├─ org.biojava.utils.BeanAsMap.class - [JAR]

├─ org.biojava.utils.ChangeAdapter.class - [JAR]

├─ org.biojava.utils.ChangeEvent.class - [JAR]

├─ org.biojava.utils.ChangeForwarder.class - [JAR]

├─ org.biojava.utils.ChangeHub.class - [JAR]

├─ org.biojava.utils.ChangeListener.class - [JAR]

├─ org.biojava.utils.ChangeSupport.class - [JAR]

├─ org.biojava.utils.ChangeType.class - [JAR]

├─ org.biojava.utils.ChangeVetoException.class - [JAR]

├─ org.biojava.utils.Changeable.class - [JAR]

├─ org.biojava.utils.ClassTools.class - [JAR]

├─ org.biojava.utils.CommitFailure.class - [JAR]

├─ org.biojava.utils.Commitable.class - [JAR]

├─ org.biojava.utils.Constants.class - [JAR]

├─ org.biojava.utils.ExecRunner.class - [JAR]

├─ org.biojava.utils.FileAsList.class - [JAR]

├─ org.biojava.utils.IndexedChangeHub.class - [JAR]

├─ org.biojava.utils.JDBCConnectionPool.class - [JAR]

├─ org.biojava.utils.JDBCPooledDataSource.class - [JAR]

├─ org.biojava.utils.ListTools.class - [JAR]

├─ org.biojava.utils.MergingIterator.class - [JAR]

├─ org.biojava.utils.MergingSet.class - [JAR]

├─ org.biojava.utils.ObjectUtil.class - [JAR]

├─ org.biojava.utils.OverlayMap.class - [JAR]

├─ org.biojava.utils.ParseErrorEvent.class - [JAR]

├─ org.biojava.utils.ParseErrorListener.class - [JAR]

├─ org.biojava.utils.ParseErrorSource.class - [JAR]

├─ org.biojava.utils.ParserException.class - [JAR]

├─ org.biojava.utils.ProcessTimeoutException.class - [JAR]

├─ org.biojava.utils.ProcessTools.class - [JAR]

├─ org.biojava.utils.RepeatedCharSequence.class - [JAR]

├─ org.biojava.utils.Services.class - [JAR]

├─ org.biojava.utils.SimpleThreadPool.class - [JAR]

├─ org.biojava.utils.SingletonList.class - [JAR]

├─ org.biojava.utils.SmallMap.class - [JAR]

├─ org.biojava.utils.SmallSet.class - [JAR]

├─ org.biojava.utils.StaticMemberPlaceHolder.class - [JAR]

├─ org.biojava.utils.StreamGobbler.class - [JAR]

├─ org.biojava.utils.ThreadPool.class - [JAR]

├─ org.biojava.utils.TriState.class - [JAR]

├─ org.biojava.utils.TypedProperties.class - [JAR]

├─ org.biojava.utils.Unchangeable.class - [JAR]

org.biojavax.bio

├─ org.biojavax.bio.BioEntry.class - [JAR]

├─ org.biojavax.bio.BioEntryIterator.class - [JAR]

├─ org.biojavax.bio.BioEntryRelationship.class - [JAR]

├─ org.biojavax.bio.SimpleBioEntry.class - [JAR]

├─ org.biojavax.bio.SimpleBioEntryRelationship.class - [JAR]

org.biojava.utils.cache

├─ org.biojava.utils.cache.Cache.class - [JAR]

├─ org.biojava.utils.cache.CacheMap.class - [JAR]

├─ org.biojava.utils.cache.CacheReference.class - [JAR]

├─ org.biojava.utils.cache.ChangeableCache.class - [JAR]

├─ org.biojava.utils.cache.FixedSizeCache.class - [JAR]

├─ org.biojava.utils.cache.FixedSizeMap.class - [JAR]

├─ org.biojava.utils.cache.KeyedWeakReference.class - [JAR]

├─ org.biojava.utils.cache.SoftReferenceCache.class - [JAR]

├─ org.biojava.utils.cache.WeakCacheMap.class - [JAR]

├─ org.biojava.utils.cache.WeakValueHashMap.class - [JAR]

org.biojava.bio.program.xff

├─ org.biojava.bio.program.xff.BasicXFFHelper.class - [JAR]

├─ org.biojava.bio.program.xff.ElementRecognizer.class - [JAR]

├─ org.biojava.bio.program.xff.FeatureHandler.class - [JAR]

├─ org.biojava.bio.program.xff.LocationHandlerBase.class - [JAR]

├─ org.biojava.bio.program.xff.PropDetailHandler.class - [JAR]

├─ org.biojava.bio.program.xff.PropertyWriter.class - [JAR]

├─ org.biojava.bio.program.xff.StrandedFeatureHandler.class - [JAR]

├─ org.biojava.bio.program.xff.XFFFeatureSetHandler.class - [JAR]

├─ org.biojava.bio.program.xff.XFFHelper.class - [JAR]

├─ org.biojava.bio.program.xff.XFFPartHandlerFactory.class - [JAR]

├─ org.biojava.bio.program.xff.XFFTools.class - [JAR]

├─ org.biojava.bio.program.xff.XFFWriter.class - [JAR]

org.biojava.bio.program.phred

├─ org.biojava.bio.program.phred.PhredFormat.class - [JAR]

├─ org.biojava.bio.program.phred.PhredSequence.class - [JAR]

├─ org.biojava.bio.program.phred.PhredTools.class - [JAR]

├─ org.biojava.bio.program.phred.Qualitative.class - [JAR]

org.biojavax

├─ org.biojavax.Comment.class - [JAR]

├─ org.biojavax.CrossRef.class - [JAR]

├─ org.biojavax.CrossReferenceResolutionException.class - [JAR]

├─ org.biojavax.CrossReferenceResolver.class - [JAR]

├─ org.biojavax.DocRef.class - [JAR]

├─ org.biojavax.DocRefAuthor.class - [JAR]

├─ org.biojavax.DummyCrossReferenceResolver.class - [JAR]

├─ org.biojavax.EmptyRichAnnotation.class - [JAR]

├─ org.biojavax.Namespace.class - [JAR]

├─ org.biojavax.Note.class - [JAR]

├─ org.biojavax.RankedCrossRef.class - [JAR]

├─ org.biojavax.RankedCrossRefable.class - [JAR]

├─ org.biojavax.RankedDocRef.class - [JAR]

├─ org.biojavax.RichAnnotatable.class - [JAR]

├─ org.biojavax.RichAnnotation.class - [JAR]

├─ org.biojavax.RichObjectBuilder.class - [JAR]

├─ org.biojavax.RichObjectFactory.class - [JAR]

├─ org.biojavax.SimpleComment.class - [JAR]

├─ org.biojavax.SimpleCrossRef.class - [JAR]

├─ org.biojavax.SimpleDocRef.class - [JAR]

├─ org.biojavax.SimpleDocRefAuthor.class - [JAR]

├─ org.biojavax.SimpleNamespace.class - [JAR]

├─ org.biojavax.SimpleNote.class - [JAR]

├─ org.biojavax.SimpleRankedCrossRef.class - [JAR]

├─ org.biojavax.SimpleRankedDocRef.class - [JAR]

├─ org.biojavax.SimpleRichAnnotation.class - [JAR]

├─ org.biojavax.SimpleRichObjectBuilder.class - [JAR]

org.biojava.bio

├─ org.biojava.bio.AbstractAnnotation.class - [JAR]

├─ org.biojava.bio.Annotatable.class - [JAR]

├─ org.biojava.bio.Annotation.class - [JAR]

├─ org.biojava.bio.AnnotationChanger.class - [JAR]

├─ org.biojava.bio.AnnotationRenamer.class - [JAR]

├─ org.biojava.bio.AnnotationTools.class - [JAR]

├─ org.biojava.bio.AnnotationType.class - [JAR]

├─ org.biojava.bio.AnyPropertyConstraint.class - [JAR]

├─ org.biojava.bio.BeanAsAnnotation.class - [JAR]

├─ org.biojava.bio.BioError.class - [JAR]

├─ org.biojava.bio.BioException.class - [JAR]

├─ org.biojava.bio.BioRuntimeException.class - [JAR]

├─ org.biojava.bio.CardinalityConstraint.class - [JAR]

├─ org.biojava.bio.CollectionConstraint.class - [JAR]

├─ org.biojava.bio.EcNumber.class - [JAR]

├─ org.biojava.bio.EmptyAnnotation.class - [JAR]

├─ org.biojava.bio.MergeAnnotation.class - [JAR]

├─ org.biojava.bio.NoneCollectionConstraint.class - [JAR]

├─ org.biojava.bio.NonePropertyConstraint.class - [JAR]

├─ org.biojava.bio.OverlayAnnotation.class - [JAR]

├─ org.biojava.bio.PropertyConstraint.class - [JAR]

├─ org.biojava.bio.SimpleAnnotation.class - [JAR]

├─ org.biojava.bio.SmallAnnotation.class - [JAR]

org.biojava.bio.program.formats

├─ org.biojava.bio.program.formats.Embl.class - [JAR]

├─ org.biojava.bio.program.formats.Enzyme.class - [JAR]

├─ org.biojava.bio.program.formats.Format.class - [JAR]

├─ org.biojava.bio.program.formats.FormatTools.class - [JAR]

├─ org.biojava.bio.program.formats.Ligand.class - [JAR]

├─ org.biojava.bio.program.formats.Swissprot.class - [JAR]

org.biojava.bio.seq.io.game

├─ org.biojava.bio.seq.io.game.ElementRecognizer.class - [JAR]

├─ org.biojava.bio.seq.io.game.GAMEAnnotationHandler.class - [JAR]

├─ org.biojava.bio.seq.io.game.GAMEAspectPropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.game.GAMEDbxrefPropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.game.GAMEDescriptionPropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.game.GAMEFeatureCallbackItf.class - [JAR]

├─ org.biojava.bio.seq.io.game.GAMEFeatureSetHandler.class - [JAR]

├─ org.biojava.bio.seq.io.game.GAMEFeatureSetPropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.game.GAMEFeatureSpanHandler.class - [JAR]

├─ org.biojava.bio.seq.io.game.GAMEGenePropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.game.GAMEHandler.class - [JAR]

├─ org.biojava.bio.seq.io.game.GAMEMapPosPropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.game.GAMENameCallbackItf.class - [JAR]

├─ org.biojava.bio.seq.io.game.GAMENamePropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.game.GAMEResiduesPropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.game.GAMESeqPropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.game.GAMESeqRelPropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.game.GAMESpanPropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.game.GAMETranscriptCallbackItf.class - [JAR]

├─ org.biojava.bio.seq.io.game.GAMETypePropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.game.SequenceContentHandlerBase.class - [JAR]

├─ org.biojava.bio.seq.io.game.StAXFeatureHandler.class - [JAR]

├─ org.biojava.bio.seq.io.game.StAXHandlerFactory.class - [JAR]

├─ org.biojava.bio.seq.io.game.StAXPropertyHandler.class - [JAR]

org.biojavax.ga.exception

├─ org.biojavax.ga.exception.IllegalOrganismException.class - [JAR]

org.biojava.bio.search

├─ org.biojava.bio.search.BioMatcher.class - [JAR]

├─ org.biojava.bio.search.BioPattern.class - [JAR]

├─ org.biojava.bio.search.BlastLikeSearchFilter.class - [JAR]

├─ org.biojava.bio.search.FilterTest.class - [JAR]

├─ org.biojava.bio.search.FilteringContentHandler.class - [JAR]

├─ org.biojava.bio.search.KnuthMorrisPrattSearch.class - [JAR]

├─ org.biojava.bio.search.MaxMismatchMatcher.class - [JAR]

├─ org.biojava.bio.search.MaxMismatchPattern.class - [JAR]

├─ org.biojava.bio.search.SearchBuilder.class - [JAR]

├─ org.biojava.bio.search.SearchContentAdapter.class - [JAR]

├─ org.biojava.bio.search.SearchContentFilter.class - [JAR]

├─ org.biojava.bio.search.SearchContentHandler.class - [JAR]

├─ org.biojava.bio.search.SearchContentHandlerDebugger.class - [JAR]

├─ org.biojava.bio.search.SeqContentMatcher.class - [JAR]

├─ org.biojava.bio.search.SeqContentPattern.class - [JAR]

├─ org.biojava.bio.search.SeqSimilaritySearchHit.class - [JAR]

├─ org.biojava.bio.search.SeqSimilaritySearchResult.class - [JAR]

├─ org.biojava.bio.search.SeqSimilaritySearchSubHit.class - [JAR]

├─ org.biojava.bio.search.SeqSimilaritySearcher.class - [JAR]

├─ org.biojava.bio.search.SequenceDBSearchHit.class - [JAR]

├─ org.biojava.bio.search.SequenceDBSearchResult.class - [JAR]

├─ org.biojava.bio.search.SequenceDBSearchSubHit.class - [JAR]

├─ org.biojava.bio.search.SimpleSeqSimilaritySearchHit.class - [JAR]

├─ org.biojava.bio.search.SimpleSeqSimilaritySearchResult.class - [JAR]

├─ org.biojava.bio.search.SimpleSeqSimilaritySearchSubHit.class - [JAR]

org.biojava.bio.seq.io

├─ org.biojava.bio.seq.io.AbstractGenEmblFileFormer.class - [JAR]

├─ org.biojava.bio.seq.io.AlignIOConstants.class - [JAR]

├─ org.biojava.bio.seq.io.AlignmentFormat.class - [JAR]

├─ org.biojava.bio.seq.io.AlternateTokenization.class - [JAR]

├─ org.biojava.bio.seq.io.CharacterTokenization.class - [JAR]

├─ org.biojava.bio.seq.io.ChunkedSymbolListFactory.class - [JAR]

├─ org.biojava.bio.seq.io.CrossProductTokenization.class - [JAR]

├─ org.biojava.bio.seq.io.DoubleTokenization.class - [JAR]

├─ org.biojava.bio.seq.io.EmblFileFormer.class - [JAR]

├─ org.biojava.bio.seq.io.EmblLikeFormat.class - [JAR]

├─ org.biojava.bio.seq.io.EmblLikeLocationParser.class - [JAR]

├─ org.biojava.bio.seq.io.EmblProcessor.class - [JAR]

├─ org.biojava.bio.seq.io.EmblReferenceComparator.class - [JAR]

├─ org.biojava.bio.seq.io.FastaAlignmentFormat.class - [JAR]

├─ org.biojava.bio.seq.io.FastaDescriptionLineParser.class - [JAR]

├─ org.biojava.bio.seq.io.FastaFormat.class - [JAR]

├─ org.biojava.bio.seq.io.FeatureTableParser.class - [JAR]

├─ org.biojava.bio.seq.io.GAMEFormat.class - [JAR]

├─ org.biojava.bio.seq.io.GenEmblFeatureComparator.class - [JAR]

├─ org.biojava.bio.seq.io.GenEmblPropertyComparator.class - [JAR]

├─ org.biojava.bio.seq.io.GenbankContext.class - [JAR]

├─ org.biojava.bio.seq.io.GenbankFileFormer.class - [JAR]

├─ org.biojava.bio.seq.io.GenbankFormat.class - [JAR]

├─ org.biojava.bio.seq.io.GenbankProcessor.class - [JAR]

├─ org.biojava.bio.seq.io.GenbankXmlFormat.class - [JAR]

├─ org.biojava.bio.seq.io.GenpeptFileFormer.class - [JAR]

├─ org.biojava.bio.seq.io.GenpeptFormat.class - [JAR]

├─ org.biojava.bio.seq.io.IntegerTokenization.class - [JAR]

├─ org.biojava.bio.seq.io.MSFAlignmentFormat.class - [JAR]

├─ org.biojava.bio.seq.io.NameTokenization.class - [JAR]

├─ org.biojava.bio.seq.io.OrganismParser.class - [JAR]

├─ org.biojava.bio.seq.io.ParseException.class - [JAR]

├─ org.biojava.bio.seq.io.ProteinRefSeqFileFormer.class - [JAR]

├─ org.biojava.bio.seq.io.ProteinRefSeqProcessor.class - [JAR]

├─ org.biojava.bio.seq.io.ReferenceAnnotation.class - [JAR]

├─ org.biojava.bio.seq.io.SeqFileFormer.class - [JAR]

├─ org.biojava.bio.seq.io.SeqIOAdapter.class - [JAR]

├─ org.biojava.bio.seq.io.SeqIOConstants.class - [JAR]

├─ org.biojava.bio.seq.io.SeqIOEventEmitter.class - [JAR]

├─ org.biojava.bio.seq.io.SeqIOFilter.class - [JAR]

├─ org.biojava.bio.seq.io.SeqIOListener.class - [JAR]

├─ org.biojava.bio.seq.io.SeqIOTools.class - [JAR]

├─ org.biojava.bio.seq.io.SequenceBuilder.class - [JAR]

├─ org.biojava.bio.seq.io.SequenceBuilderBase.class - [JAR]

├─ org.biojava.bio.seq.io.SequenceBuilderFactory.class - [JAR]

├─ org.biojava.bio.seq.io.SequenceBuilderFilter.class - [JAR]

├─ org.biojava.bio.seq.io.SequenceFormat.class - [JAR]

├─ org.biojava.bio.seq.io.SimpleAssemblyBuilder.class - [JAR]

├─ org.biojava.bio.seq.io.SimpleSequenceBuilder.class - [JAR]

├─ org.biojava.bio.seq.io.SmartSequenceBuilder.class - [JAR]

├─ org.biojava.bio.seq.io.StreamParser.class - [JAR]

├─ org.biojava.bio.seq.io.StreamReader.class - [JAR]

├─ org.biojava.bio.seq.io.StreamWriter.class - [JAR]

├─ org.biojava.bio.seq.io.SubIntegerTokenization.class - [JAR]

├─ org.biojava.bio.seq.io.SwissprotFeatureTableParser.class - [JAR]

├─ org.biojava.bio.seq.io.SwissprotFileFormer.class - [JAR]

├─ org.biojava.bio.seq.io.SwissprotProcessor.class - [JAR]

├─ org.biojava.bio.seq.io.SymbolListCharSequence.class - [JAR]

├─ org.biojava.bio.seq.io.SymbolReader.class - [JAR]

├─ org.biojava.bio.seq.io.SymbolTokenization.class - [JAR]

├─ org.biojava.bio.seq.io.WordTokenization.class - [JAR]

org.biojavax.bio.db

├─ org.biojavax.bio.db.AbstractBioEntryDB.class - [JAR]

├─ org.biojavax.bio.db.AbstractRichSequenceDB.class - [JAR]

├─ org.biojavax.bio.db.BioEntryDB.class - [JAR]

├─ org.biojavax.bio.db.BioEntryDBLite.class - [JAR]

├─ org.biojavax.bio.db.HashBioEntryDB.class - [JAR]

├─ org.biojavax.bio.db.HashRichSequenceDB.class - [JAR]

├─ org.biojavax.bio.db.RichSequenceDB.class - [JAR]

├─ org.biojavax.bio.db.RichSequenceDBLite.class - [JAR]

org.biojava.utils.process

├─ org.biojava.utils.process.ExternalProcess.class - [JAR]

├─ org.biojava.utils.process.InputHandler.class - [JAR]

├─ org.biojava.utils.process.OutputHandler.class - [JAR]

├─ org.biojava.utils.process.ReaderInputHandler.class - [JAR]

├─ org.biojava.utils.process.ReaderWriterPipe.class - [JAR]

├─ org.biojava.utils.process.SimpleInputHandler.class - [JAR]

├─ org.biojava.utils.process.SimpleOutputHandler.class - [JAR]

├─ org.biojava.utils.process.StreamPipe.class - [JAR]

├─ org.biojava.utils.process.WriterOutputHandler.class - [JAR]

org.biojavax.bio.taxa.io

├─ org.biojavax.bio.taxa.io.NCBITaxonomyLoader.class - [JAR]

├─ org.biojavax.bio.taxa.io.SimpleNCBITaxonomyLoader.class - [JAR]

org.biojava.bio.molbio

├─ org.biojava.bio.molbio.Composition.class - [JAR]

├─ org.biojava.bio.molbio.DNAComposition.class - [JAR]

├─ org.biojava.bio.molbio.RestrictionEnzyme.class - [JAR]

├─ org.biojava.bio.molbio.RestrictionEnzymeManager.class - [JAR]

├─ org.biojava.bio.molbio.RestrictionMapper.class - [JAR]

├─ org.biojava.bio.molbio.RestrictionSite.class - [JAR]

├─ org.biojava.bio.molbio.RestrictionSiteFinder.class - [JAR]

org.biojavax.utils

├─ org.biojavax.utils.CRC64Checksum.class - [JAR]

├─ org.biojavax.utils.StringTools.class - [JAR]

├─ org.biojavax.utils.XMLTools.class - [JAR]

org.biojava.utils.candy

├─ org.biojava.utils.candy.CandyEntry.class - [JAR]

├─ org.biojava.utils.candy.CandyException.class - [JAR]

├─ org.biojava.utils.candy.CandyFinder.class - [JAR]

├─ org.biojava.utils.candy.CandyVocabulary.class - [JAR]

org.biojava.naming

├─ org.biojava.naming.ObdaContext.class - [JAR]

├─ org.biojava.naming.ObdaInitialContextFactory.class - [JAR]

├─ org.biojava.naming.ObdaUriParser.class - [JAR]

org.biojava.bio.seq.db.emblcd

├─ org.biojava.bio.seq.db.emblcd.AcnumHitReader.class - [JAR]

├─ org.biojava.bio.seq.db.emblcd.AcnumTrgReader.class - [JAR]

├─ org.biojava.bio.seq.db.emblcd.DivisionLkpReader.class - [JAR]

├─ org.biojava.bio.seq.db.emblcd.EmblCDROMIndexReader.class - [JAR]

├─ org.biojava.bio.seq.db.emblcd.EmblCDROMRandomAccess.class - [JAR]

├─ org.biojava.bio.seq.db.emblcd.EntryNamIdxReader.class - [JAR]

├─ org.biojava.bio.seq.db.emblcd.EntryNamRandomAccess.class - [JAR]

├─ org.biojava.bio.seq.db.emblcd.RecordParser.class - [JAR]

org.biojava.bio.proteomics

├─ org.biojava.bio.proteomics.Digest.class - [JAR]

├─ org.biojava.bio.proteomics.IsoelectricPointCalc.class - [JAR]

├─ org.biojava.bio.proteomics.MassCalc.class - [JAR]

├─ org.biojava.bio.proteomics.Protease.class - [JAR]

├─ org.biojava.bio.proteomics.ProteaseManager.class - [JAR]

├─ org.biojava.bio.proteomics.StructureTools.class - [JAR]

org.biojavax.bio.taxa

├─ org.biojavax.bio.taxa.NCBITaxon.class - [JAR]

├─ org.biojavax.bio.taxa.SimpleNCBITaxon.class - [JAR]

├─ org.biojavax.bio.taxa.SimpleNCBITaxonName.class - [JAR]

org.biojava.bio.dp.twohead

├─ org.biojava.bio.dp.twohead.AbstractMatrixPairDPCursor.class - [JAR]

├─ org.biojava.bio.dp.twohead.BackMatrixPairDPCursor.class - [JAR]

├─ org.biojava.bio.dp.twohead.Cell.class - [JAR]

├─ org.biojava.bio.dp.twohead.CellCalculator.class - [JAR]

├─ org.biojava.bio.dp.twohead.CellCalculatorFactory.class - [JAR]

├─ org.biojava.bio.dp.twohead.CellCalculatorFactoryMaker.class - [JAR]

├─ org.biojava.bio.dp.twohead.DPCompiler.class - [JAR]

├─ org.biojava.bio.dp.twohead.DPInterpreter.class - [JAR]

├─ org.biojava.bio.dp.twohead.EmissionCache.class - [JAR]

├─ org.biojava.bio.dp.twohead.LightPairDPCursor.class - [JAR]

├─ org.biojava.bio.dp.twohead.MatrixPairDPCursor.class - [JAR]

├─ org.biojava.bio.dp.twohead.PairDPCursor.class - [JAR]

├─ org.biojava.bio.dp.twohead.PairDPMatrix.class - [JAR]

├─ org.biojava.bio.dp.twohead.PairwiseDP.class - [JAR]

org.biojava.utils.lsid

├─ org.biojava.utils.lsid.Identifiable.class - [JAR]

├─ org.biojava.utils.lsid.LifeScienceIdentifier.class - [JAR]

├─ org.biojava.utils.lsid.LifeScienceIdentifierParseException.class - [JAR]

org.biojava.utils.net

├─ org.biojava.utils.net.URLFactory.class - [JAR]

org.biojava.bio.program.gff

├─ org.biojava.bio.program.gff.GFFComparator.class - [JAR]

├─ org.biojava.bio.program.gff.GFFDocumentHandler.class - [JAR]

├─ org.biojava.bio.program.gff.GFFEntrySet.class - [JAR]

├─ org.biojava.bio.program.gff.GFFErrorHandler.class - [JAR]

├─ org.biojava.bio.program.gff.GFFFilterer.class - [JAR]

├─ org.biojava.bio.program.gff.GFFParser.class - [JAR]

├─ org.biojava.bio.program.gff.GFFRecord.class - [JAR]

├─ org.biojava.bio.program.gff.GFFRecordFilter.class - [JAR]

├─ org.biojava.bio.program.gff.GFFTools.class - [JAR]

├─ org.biojava.bio.program.gff.GFFWriter.class - [JAR]

├─ org.biojava.bio.program.gff.IgnoreRecordException.class - [JAR]

├─ org.biojava.bio.program.gff.SequencesAsGFF.class - [JAR]

├─ org.biojava.bio.program.gff.SimpleGFFRecord.class - [JAR]

org.biojava.bio.program

├─ org.biojava.bio.program.Meme.class - [JAR]

org.biojava.utils.walker

├─ org.biojava.utils.walker.Visitor.class - [JAR]

├─ org.biojava.utils.walker.Walker.class - [JAR]

├─ org.biojava.utils.walker.WalkerFactory.class - [JAR]

org.biojavax.bio.db.ncbi

├─ org.biojavax.bio.db.ncbi.GenbankRichSequenceDB.class - [JAR]

├─ org.biojavax.bio.db.ncbi.GenpeptRichSequenceDB.class - [JAR]

org.biojava.bio.seq.io.agave

├─ org.biojava.bio.seq.io.agave.AGAVEAltIdsPropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEAnnotFilter.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEAnnotFilterFactory.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEAnnotationsHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEAssemblyHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEBioSeqCallbackItf.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEBioSeqHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEBioSequenceHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVECallbackItf.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVECdsHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEChromosomeCallbackItf.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEChromosomeHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEClassificationHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVECompResultHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEComputationHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEContigCallbackItf.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEContigHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEDbId.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEDbIdCallbackItf.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEDbIdPropCallbackItf.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEDbIdPropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEDescPropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEElementIdPropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEEvidenceCallbackItf.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEEvidenceHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEExonsPropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEFeatureCallbackItf.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEFragmentOrderHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEFragmentOrientationHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEGeneHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEIdAlias.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEIdAliasCallbackItf.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEIdAliasPropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEKeywordPropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEMapLocation.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEMapLocationPropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEMapPosition.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEMapPositionPropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEMatchAlignPropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEMatchDescPropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEMatchRegion.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEMatchRegionPropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEMrnaHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVENotePropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEPredictedProteinHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEProperty.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEQualifierPropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEQueryRegion.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEQueryRegionPropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVERelatedAnnot.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVERelatedAnnotPropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEResultGroupHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEResultPropertyPropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVESciPropertyPropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVESeqFeatureHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVESeqLocationPropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVESeqMapHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVESeqPropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVETranscriptHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEUnorderedFragmentsHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEViewPropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEXref.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEXrefCallbackItf.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEXrefPropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEXrefPropPropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEXrefs.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AGAVEXrefsPropHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.Agave2AgaveAnnotFilter.class - [JAR]

├─ org.biojava.bio.seq.io.agave.AgaveWriter.class - [JAR]

├─ org.biojava.bio.seq.io.agave.DelegationManager.class - [JAR]

├─ org.biojava.bio.seq.io.agave.ElementRecognizer.class - [JAR]

├─ org.biojava.bio.seq.io.agave.Embl2AgaveAnnotFilter.class - [JAR]

├─ org.biojava.bio.seq.io.agave.PCDATAFilterWriter.class - [JAR]

├─ org.biojava.bio.seq.io.agave.SAX2StAXAdaptor.class - [JAR]

├─ org.biojava.bio.seq.io.agave.SequenceHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.SimpleAnnotFilter.class - [JAR]

├─ org.biojava.bio.seq.io.agave.StAXContentHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.StAXContentHandlerBase.class - [JAR]

├─ org.biojava.bio.seq.io.agave.StAXFeatureHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.StAXHandlerFactory.class - [JAR]

├─ org.biojava.bio.seq.io.agave.StAXPropertyHandler.class - [JAR]

├─ org.biojava.bio.seq.io.agave.UtilHelper.class - [JAR]

org.biojava.bio.seq.db.biofetch

├─ org.biojava.bio.seq.db.biofetch.BioFetchSequenceDB.class - [JAR]

├─ org.biojava.bio.seq.db.biofetch.BioFetchSequenceDBProvider.class - [JAR]

org.biojavax.bio.seq.io

├─ org.biojavax.bio.seq.io.DebuggingRichSeqIOListener.class - [JAR]

├─ org.biojavax.bio.seq.io.EMBLFormat.class - [JAR]

├─ org.biojavax.bio.seq.io.EMBLxmlFormat.class - [JAR]

├─ org.biojavax.bio.seq.io.FastaFormat.class - [JAR]

├─ org.biojavax.bio.seq.io.FastaHeader.class - [JAR]

├─ org.biojavax.bio.seq.io.GenbankFormat.class - [JAR]

├─ org.biojavax.bio.seq.io.GenbankLocationParser.class - [JAR]

├─ org.biojavax.bio.seq.io.HashedFastaIterator.class - [JAR]

├─ org.biojavax.bio.seq.io.INSDseqFormat.class - [JAR]

├─ org.biojavax.bio.seq.io.MyRichSeqIOListener.class - [JAR]

├─ org.biojavax.bio.seq.io.RichSeqIOAdapter.class - [JAR]

├─ org.biojavax.bio.seq.io.RichSeqIOListener.class - [JAR]

├─ org.biojavax.bio.seq.io.RichSequenceBuilder.class - [JAR]

├─ org.biojavax.bio.seq.io.RichSequenceBuilderFactory.class - [JAR]

├─ org.biojavax.bio.seq.io.RichSequenceFormat.class - [JAR]

├─ org.biojavax.bio.seq.io.RichStreamReader.class - [JAR]

├─ org.biojavax.bio.seq.io.RichStreamWriter.class - [JAR]

├─ org.biojavax.bio.seq.io.SimpleRichSequenceBuilder.class - [JAR]

├─ org.biojavax.bio.seq.io.SimpleRichSequenceBuilderFactory.class - [JAR]

├─ org.biojavax.bio.seq.io.UniProtCommentParser.class - [JAR]

├─ org.biojavax.bio.seq.io.UniProtFormat.class - [JAR]

├─ org.biojavax.bio.seq.io.UniProtLocationParser.class - [JAR]

├─ org.biojavax.bio.seq.io.UniProtXMLFormat.class - [JAR]

org.biojava.bio.dp.onehead

├─ org.biojava.bio.dp.onehead.AbstractCursor.class - [JAR]

├─ org.biojava.bio.dp.onehead.DPCursor.class - [JAR]

├─ org.biojava.bio.dp.onehead.MatrixCursor.class - [JAR]

├─ org.biojava.bio.dp.onehead.SingleDP.class - [JAR]

├─ org.biojava.bio.dp.onehead.SingleDPMatrix.class - [JAR]

├─ org.biojava.bio.dp.onehead.SmallCursor.class - [JAR]

org.biojava.bio.seq.homol

├─ org.biojava.bio.seq.homol.Homology.class - [JAR]

├─ org.biojava.bio.seq.homol.HomologyDB.class - [JAR]

├─ org.biojava.bio.seq.homol.HomologyFeature.class - [JAR]

├─ org.biojava.bio.seq.homol.SimilarityPairFeature.class - [JAR]

├─ org.biojava.bio.seq.homol.SimpleHomology.class - [JAR]

org.biojava.bio.seq.io.game12

├─ org.biojava.bio.seq.io.game12.GAMEAnnotationHandler.class - [JAR]

├─ org.biojava.bio.seq.io.game12.GAMEAspectHandler.class - [JAR]

├─ org.biojava.bio.seq.io.game12.GAMEDbxrefHandler.class - [JAR]

├─ org.biojava.bio.seq.io.game12.GAMEFeatureSetHandler.class - [JAR]

├─ org.biojava.bio.seq.io.game12.GAMEFeatureSpanHandler.class - [JAR]

├─ org.biojava.bio.seq.io.game12.GAMEGeneHandler.class - [JAR]

├─ org.biojava.bio.seq.io.game12.GAMEHandler.class - [JAR]

├─ org.biojava.bio.seq.io.game12.GAMEPropertyHandler.class - [JAR]

├─ org.biojava.bio.seq.io.game12.GAMESeqHandler.class - [JAR]

├─ org.biojava.bio.seq.io.game12.GAMESeqRelHandler.class - [JAR]

├─ org.biojava.bio.seq.io.game12.GAMESpanHandler.class - [JAR]

├─ org.biojava.bio.seq.io.game12.StAXFeatureHandler.class - [JAR]

├─ org.biojava.bio.seq.io.game12.StAXHandlerFactory.class - [JAR]

org.biojava.utils.stax

├─ org.biojava.utils.stax.BooleanElementHandlerBase.class - [JAR]

├─ org.biojava.utils.stax.ByteElementHandlerBase.class - [JAR]

├─ org.biojava.utils.stax.CharElementHandlerBase.class - [JAR]

├─ org.biojava.utils.stax.DelegationManager.class - [JAR]

├─ org.biojava.utils.stax.DoubleElementHandlerBase.class - [JAR]

├─ org.biojava.utils.stax.FloatElementHandlerBase.class - [JAR]

├─ org.biojava.utils.stax.IntElementHandlerBase.class - [JAR]

├─ org.biojava.utils.stax.LongElementHandlerBase.class - [JAR]

├─ org.biojava.utils.stax.SAX2StAXAdaptor.class - [JAR]

├─ org.biojava.utils.stax.StAXContentHandler.class - [JAR]

├─ org.biojava.utils.stax.StAXContentHandlerBase.class - [JAR]

├─ org.biojava.utils.stax.StringElementHandlerBase.class - [JAR]

org.biojava.ontology.io

├─ org.biojava.ontology.io.GOParser.class - [JAR]

├─ org.biojava.ontology.io.OboParser.class - [JAR]

├─ org.biojava.ontology.io.TabDelimParser.class - [JAR]

org.biojava.bio.program.ssbind

├─ org.biojava.bio.program.ssbind.AnnotationFactory.class - [JAR]

org.biojava.bibliography

├─ org.biojava.bibliography.BibRef.class - [JAR]

├─ org.biojava.bibliography.BibRefException.class - [JAR]

├─ org.biojava.bibliography.BibRefQuery.class - [JAR]

├─ org.biojava.bibliography.BibRefSupport.class - [JAR]

├─ org.biojava.bibliography.BiblioArticle.class - [JAR]

├─ org.biojava.bibliography.BiblioBook.class - [JAR]

├─ org.biojava.bibliography.BiblioBookArticle.class - [JAR]

├─ org.biojava.bibliography.BiblioCriterion.class - [JAR]

├─ org.biojava.bibliography.BiblioDescription.class - [JAR]

├─ org.biojava.bibliography.BiblioEntryStatus.class - [JAR]

├─ org.biojava.bibliography.BiblioJournal.class - [JAR]

├─ org.biojava.bibliography.BiblioJournalArticle.class - [JAR]

├─ org.biojava.bibliography.BiblioOrganisation.class - [JAR]

├─ org.biojava.bibliography.BiblioPatent.class - [JAR]

├─ org.biojava.bibliography.BiblioPerson.class - [JAR]

├─ org.biojava.bibliography.BiblioProceeding.class - [JAR]

├─ org.biojava.bibliography.BiblioProvider.class - [JAR]

├─ org.biojava.bibliography.BiblioScope.class - [JAR]

├─ org.biojava.bibliography.BiblioService.class - [JAR]

├─ org.biojava.bibliography.BiblioSubject.class - [JAR]

├─ org.biojava.bibliography.BiblioTechReport.class - [JAR]

├─ org.biojava.bibliography.BiblioThesis.class - [JAR]

├─ org.biojava.bibliography.BiblioWebResource.class - [JAR]

org.biojava.bio.seq.db

├─ org.biojava.bio.seq.db.AbstractSequenceDB.class - [JAR]

├─ org.biojava.bio.seq.db.AnnotatedSequenceDB.class - [JAR]

├─ org.biojava.bio.seq.db.BioIndex.class - [JAR]

├─ org.biojava.bio.seq.db.CachingSequenceDB.class - [JAR]

├─ org.biojava.bio.seq.db.DummySequenceDB.class - [JAR]

├─ org.biojava.bio.seq.db.DummySequenceDBInstallation.class - [JAR]

├─ org.biojava.bio.seq.db.EmblCDROMIndexStore.class - [JAR]

├─ org.biojava.bio.seq.db.FetchURL.class - [JAR]

├─ org.biojava.bio.seq.db.GenbankSequenceDB.class - [JAR]

├─ org.biojava.bio.seq.db.GenpeptSequenceDB.class - [JAR]

├─ org.biojava.bio.seq.db.HashSequenceDB.class - [JAR]

├─ org.biojava.bio.seq.db.IDMaker.class - [JAR]

├─ org.biojava.bio.seq.db.IllegalIDException.class - [JAR]

├─ org.biojava.bio.seq.db.Index.class - [JAR]

├─ org.biojava.bio.seq.db.IndexStore.class - [JAR]

├─ org.biojava.bio.seq.db.IndexedSequenceDB.class - [JAR]

├─ org.biojava.bio.seq.db.NCBISequenceDB.class - [JAR]

├─ org.biojava.bio.seq.db.SequenceDB.class - [JAR]

├─ org.biojava.bio.seq.db.SequenceDBInstallation.class - [JAR]

├─ org.biojava.bio.seq.db.SequenceDBLite.class - [JAR]

├─ org.biojava.bio.seq.db.SequenceDBWrapper.class - [JAR]

├─ org.biojava.bio.seq.db.SimpleIndex.class - [JAR]

├─ org.biojava.bio.seq.db.SimpleSequenceDBInstallation.class - [JAR]

├─ org.biojava.bio.seq.db.SubSequenceDB.class - [JAR]

├─ org.biojava.bio.seq.db.SwissprotSequenceDB.class - [JAR]

├─ org.biojava.bio.seq.db.TabIndexStore.class - [JAR]

├─ org.biojava.bio.seq.db.ViewingSequenceDB.class - [JAR]

├─ org.biojava.bio.seq.db.WebSequenceDB.class - [JAR]

org.biojavax.ga.functions

├─ org.biojavax.ga.functions.AbstractCrossOverFunction.class - [JAR]

├─ org.biojavax.ga.functions.AbstractMutationFunction.class - [JAR]

├─ org.biojavax.ga.functions.CrossOverFunction.class - [JAR]

├─ org.biojavax.ga.functions.FitnessFunction.class - [JAR]

├─ org.biojavax.ga.functions.GACross.class - [JAR]

├─ org.biojavax.ga.functions.GACrossResult.class - [JAR]

├─ org.biojavax.ga.functions.MutationFunction.class - [JAR]

├─ org.biojavax.ga.functions.OrderCrossover.class - [JAR]

├─ org.biojavax.ga.functions.ProportionalSelection.class - [JAR]

├─ org.biojavax.ga.functions.SelectionFunction.class - [JAR]

├─ org.biojavax.ga.functions.SimpleCrossOverFunction.class - [JAR]

├─ org.biojavax.ga.functions.SimpleGACrossResult.class - [JAR]

├─ org.biojavax.ga.functions.SimpleMutationFunction.class - [JAR]

├─ org.biojavax.ga.functions.SwapMutationFunction.class - [JAR]

├─ org.biojavax.ga.functions.TournamentSelection.class - [JAR]

org.biojava.bio.seq.filter

├─ org.biojava.bio.seq.filter.FilterTransformer.class - [JAR]

org.biojava.bio.symbol

├─ org.biojava.bio.symbol.AbstractAlphabet.class - [JAR]

├─ org.biojava.bio.symbol.AbstractLocation.class - [JAR]

├─ org.biojava.bio.symbol.AbstractLocationDecorator.class - [JAR]

├─ org.biojava.bio.symbol.AbstractManyToOneTranslationTable.class - [JAR]

├─ org.biojava.bio.symbol.AbstractRangeLocation.class - [JAR]

├─ org.biojava.bio.symbol.AbstractReversibleTranslationTable.class - [JAR]

├─ org.biojava.bio.symbol.AbstractSimpleBasisSymbol.class - [JAR]

├─ org.biojava.bio.symbol.AbstractSymbol.class - [JAR]

├─ org.biojava.bio.symbol.AbstractSymbolList.class - [JAR]

├─ org.biojava.bio.symbol.AbstractTranslationTable.class - [JAR]

├─ org.biojava.bio.symbol.Alphabet.class - [JAR]

├─ org.biojava.bio.symbol.AlphabetIndex.class - [JAR]

├─ org.biojava.bio.symbol.AlphabetManager.class - [JAR]

├─ org.biojava.bio.symbol.AtomicSymbol.class - [JAR]

├─ org.biojava.bio.symbol.BasisSymbol.class - [JAR]

├─ org.biojava.bio.symbol.BetweenLocation.class - [JAR]

├─ org.biojava.bio.symbol.BetweenLocationTools.class - [JAR]

├─ org.biojava.bio.symbol.ChunkedSymbolList.class - [JAR]

├─ org.biojava.bio.symbol.CircularLocation.class - [JAR]

├─ org.biojava.bio.symbol.CircularLocationTools.class - [JAR]

├─ org.biojava.bio.symbol.CodonPref.class - [JAR]

├─ org.biojava.bio.symbol.CodonPrefFilter.class - [JAR]

├─ org.biojava.bio.symbol.CodonPrefTools.class - [JAR]

├─ org.biojava.bio.symbol.CompoundLocation.class - [JAR]

├─ org.biojava.bio.symbol.CrossProductAlphabetIndex.class - [JAR]

├─ org.biojava.bio.symbol.DNAAmbPack.class - [JAR]

├─ org.biojava.bio.symbol.DNANoAmbPack.class - [JAR]

├─ org.biojava.bio.symbol.DoubleAlphabet.class - [JAR]

├─ org.biojava.bio.symbol.DummySymbolList.class - [JAR]

├─ org.biojava.bio.symbol.Edit.class - [JAR]

├─ org.biojava.bio.symbol.EmptyAlphabet.class - [JAR]

├─ org.biojava.bio.symbol.EmptyLocation.class - [JAR]

├─ org.biojava.bio.symbol.EmptySymbolList.class - [JAR]

├─ org.biojava.bio.symbol.FiniteAlphabet.class - [JAR]

├─ org.biojava.bio.symbol.FullDnaAlphabetIndex.class - [JAR]

├─ org.biojava.bio.symbol.FundamentalAtomicSymbol.class - [JAR]

├─ org.biojava.bio.symbol.FuzzyLocation.class - [JAR]

├─ org.biojava.bio.symbol.FuzzyPointLocation.class - [JAR]

├─ org.biojava.bio.symbol.GappedSymbolList.class - [JAR]

├─ org.biojava.bio.symbol.HashedAlphabetIndex.class - [JAR]

├─ org.biojava.bio.symbol.IllegalAlphabetException.class - [JAR]

├─ org.biojava.bio.symbol.IllegalSymbolException.class - [JAR]

├─ org.biojava.bio.symbol.IndexedNoAmbPack.class - [JAR]

├─ org.biojava.bio.symbol.InfiniteCrossProductAlphabet.class - [JAR]

├─ org.biojava.bio.symbol.IntegerAlphabet.class - [JAR]

├─ org.biojava.bio.symbol.LinearAlphabetIndex.class - [JAR]

├─ org.biojava.bio.symbol.Location.class - [JAR]

├─ org.biojava.bio.symbol.LocationComparator.class - [JAR]

├─ org.biojava.bio.symbol.LocationTools.class - [JAR]

├─ org.biojava.bio.symbol.ManyToOneTranslationTable.class - [JAR]

├─ org.biojava.bio.symbol.MergeLocation.class - [JAR]

├─ org.biojava.bio.symbol.MotifTools.class - [JAR]

├─ org.biojava.bio.symbol.OrderNSymbolList.class - [JAR]

├─ org.biojava.bio.symbol.PackedSymbolList.class - [JAR]

├─ org.biojava.bio.symbol.PackedSymbolListFactory.class - [JAR]

├─ org.biojava.bio.symbol.Packing.class - [JAR]

├─ org.biojava.bio.symbol.PackingFactory.class - [JAR]

├─ org.biojava.bio.symbol.PointLocation.class - [JAR]

├─ org.biojava.bio.symbol.RangeLocation.class - [JAR]

├─ org.biojava.bio.symbol.RelabeledAlignment.class - [JAR]

├─ org.biojava.bio.symbol.ReverseSymbolList.class - [JAR]

├─ org.biojava.bio.symbol.ReversibleTranslationTable.class - [JAR]

├─ org.biojava.bio.symbol.SimpleAlphabet.class - [JAR]

├─ org.biojava.bio.symbol.SimpleAtomicSymbol.class - [JAR]

├─ org.biojava.bio.symbol.SimpleBasisSymbol.class - [JAR]

├─ org.biojava.bio.symbol.SimpleCodonPref.class - [JAR]

├─ org.biojava.bio.symbol.SimpleCrossProductAlphabet.class - [JAR]

├─ org.biojava.bio.symbol.SimpleGappedSymbolList.class - [JAR]

├─ org.biojava.bio.symbol.SimpleGeneticCodeTable.class - [JAR]

├─ org.biojava.bio.symbol.SimpleManyToOneTranslationTable.class - [JAR]

├─ org.biojava.bio.symbol.SimpleReversibleTranslationTable.class - [JAR]

├─ org.biojava.bio.symbol.SimpleSymbol.class - [JAR]

├─ org.biojava.bio.symbol.SimpleSymbolList.class - [JAR]

├─ org.biojava.bio.symbol.SimpleSymbolListFactory.class - [JAR]

├─ org.biojava.bio.symbol.SimpleSymbolPropertyTable.class - [JAR]

├─ org.biojava.bio.symbol.SimpleTranslationTable.class - [JAR]

├─ org.biojava.bio.symbol.SimpleWobbleDistribution.class - [JAR]

├─ org.biojava.bio.symbol.SingletonAlphabet.class - [JAR]

├─ org.biojava.bio.symbol.SoftMaskedAlphabet.class - [JAR]

├─ org.biojava.bio.symbol.SparseCrossProductAlphabet.class - [JAR]

├─ org.biojava.bio.symbol.SubList.class - [JAR]

├─ org.biojava.bio.symbol.SuffixTree.class - [JAR]

├─ org.biojava.bio.symbol.Symbol.class - [JAR]

├─ org.biojava.bio.symbol.SymbolList.class - [JAR]

├─ org.biojava.bio.symbol.SymbolListFactory.class - [JAR]

├─ org.biojava.bio.symbol.SymbolListViews.class - [JAR]

├─ org.biojava.bio.symbol.SymbolPropertyTable.class - [JAR]

├─ org.biojava.bio.symbol.TranslatedSymbolList.class - [JAR]

├─ org.biojava.bio.symbol.TranslationTable.class - [JAR]

├─ org.biojava.bio.symbol.UkkonenSuffixTree.class - [JAR]

├─ org.biojava.bio.symbol.WindowedSymbolList.class - [JAR]

├─ org.biojava.bio.symbol.WobbleDistribution.class - [JAR]

org.biojava.utils.xml

├─ org.biojava.utils.xml.AppBeanRunner.class - [JAR]

├─ org.biojava.utils.xml.AppEntry.class - [JAR]

├─ org.biojava.utils.xml.AppException.class - [JAR]

├─ org.biojava.utils.xml.FastXMLWriter.class - [JAR]

├─ org.biojava.utils.xml.Initializable.class - [JAR]

├─ org.biojava.utils.xml.PrettyXMLWriter.class - [JAR]

├─ org.biojava.utils.xml.ResourceEntityResolver.class - [JAR]

├─ org.biojava.utils.xml.XMLBeans.class - [JAR]

├─ org.biojava.utils.xml.XMLWritable.class - [JAR]

├─ org.biojava.utils.xml.XMLWriter.class - [JAR]

org.biojavax.bio.alignment

├─ org.biojavax.bio.alignment.RemotePairwiseAlignmentOutputProperties.class - [JAR]

├─ org.biojavax.bio.alignment.RemotePairwiseAlignmentProperties.class - [JAR]

├─ org.biojavax.bio.alignment.RemotePairwiseAlignmentService.class - [JAR]

org.biojava.bio.annodb

├─ org.biojava.bio.annodb.AnnotationDB.class - [JAR]

├─ org.biojava.bio.annodb.EmptyAnnotationDB.class - [JAR]

├─ org.biojava.bio.annodb.IndexedAnnotationDB.class - [JAR]

├─ org.biojava.bio.annodb.LazyFilteredAnnotationDB.class - [JAR]

├─ org.biojava.bio.annodb.LazySearchedAnnotationDB.class - [JAR]

├─ org.biojava.bio.annodb.MergingAnnotationDB.class - [JAR]

├─ org.biojava.bio.annodb.SimpleAnnotationDB.class - [JAR]

org.biojava.bio.seq.io.filterxml

├─ org.biojava.bio.seq.io.filterxml.QName.class - [JAR]

├─ org.biojava.bio.seq.io.filterxml.XMLAnnotationTypeHandler.class - [JAR]

├─ org.biojava.bio.seq.io.filterxml.XMLAnnotationTypeWriter.class - [JAR]

├─ org.biojava.bio.seq.io.filterxml.XMLFilterHandler.class - [JAR]

├─ org.biojava.bio.seq.io.filterxml.XMLFilterWriter.class - [JAR]

org.biojava.ontology.obo

├─ org.biojava.ontology.obo.NestedValue.class - [JAR]

├─ org.biojava.ontology.obo.OboFileEventListener.class - [JAR]

├─ org.biojava.ontology.obo.OboFileHandler.class - [JAR]

├─ org.biojava.ontology.obo.OboFileParser.class - [JAR]

org.biojava.bio.program.indexdb

├─ org.biojava.bio.program.indexdb.BioStore.class - [JAR]

├─ org.biojava.bio.program.indexdb.BioStoreFactory.class - [JAR]

├─ org.biojava.bio.program.indexdb.CacheList.class - [JAR]

├─ org.biojava.bio.program.indexdb.ConfigFile.class - [JAR]

├─ org.biojava.bio.program.indexdb.IndexStore.class - [JAR]

├─ org.biojava.bio.program.indexdb.IndexTools.class - [JAR]

├─ org.biojava.bio.program.indexdb.KeyPair.class - [JAR]

├─ org.biojava.bio.program.indexdb.PrimaryIDList.class - [JAR]

├─ org.biojava.bio.program.indexdb.PropertiesAnnotation.class - [JAR]

├─ org.biojava.bio.program.indexdb.Record.class - [JAR]

├─ org.biojava.bio.program.indexdb.SearchableFileAsList.class - [JAR]

├─ org.biojava.bio.program.indexdb.SearchableList.class - [JAR]

├─ org.biojava.bio.program.indexdb.SecondaryFileAsList.class - [JAR]

org.biojava.bio.proteomics.aaindex

├─ org.biojava.bio.proteomics.aaindex.AAindex.class - [JAR]

├─ org.biojava.bio.proteomics.aaindex.AAindexStreamReader.class - [JAR]

├─ org.biojava.bio.proteomics.aaindex.SimpleSymbolPropertyTableDB.class - [JAR]

├─ org.biojava.bio.proteomics.aaindex.SymbolPropertyTableDB.class - [JAR]

├─ org.biojava.bio.proteomics.aaindex.SymbolPropertyTableIterator.class - [JAR]

org.biojava.directory

├─ org.biojava.directory.OBDARegistryParser.class - [JAR]

├─ org.biojava.directory.ProviderNotFoundException.class - [JAR]

├─ org.biojava.directory.Registry.class - [JAR]

├─ org.biojava.directory.RegistryConfiguration.class - [JAR]

├─ org.biojava.directory.RegistryException.class - [JAR]

├─ org.biojava.directory.SequenceDBProvider.class - [JAR]

├─ org.biojava.directory.SystemRegistry.class - [JAR]

org.biojava.bio.program.hmmer

├─ org.biojava.bio.program.hmmer.FullHmmerProfileHMM.class - [JAR]

├─ org.biojava.bio.program.hmmer.HmmerProfileHMM.class - [JAR]

├─ org.biojava.bio.program.hmmer.HmmerProfileParser.class - [JAR]

├─ org.biojava.bio.program.hmmer.ProfileEmissionState.class - [JAR]

org.biojava.utils.math

├─ org.biojava.utils.math.BinarySearch.class - [JAR]

├─ org.biojava.utils.math.ComputeObject.class - [JAR]

org.biojavax.ga.impl

├─ org.biojavax.ga.impl.AbstractGeneticAlgorithm.class - [JAR]

├─ org.biojavax.ga.impl.AbstractOrganism.class - [JAR]

├─ org.biojavax.ga.impl.AbstractPopulation.class - [JAR]

├─ org.biojavax.ga.impl.SimpleGeneticAlgorithm.class - [JAR]

├─ org.biojavax.ga.impl.SimpleOrganism.class - [JAR]

├─ org.biojavax.ga.impl.SimplePopulation.class - [JAR]

org.biojava.bio.dp

├─ org.biojava.bio.dp.AbstractTrainer.class - [JAR]

├─ org.biojava.bio.dp.BackPointer.class - [JAR]

├─ org.biojava.bio.dp.BaumWelchSampler.class - [JAR]

├─ org.biojava.bio.dp.BaumWelchTrainer.class - [JAR]

├─ org.biojava.bio.dp.DP.class - [JAR]

├─ org.biojava.bio.dp.DPFactory.class - [JAR]

├─ org.biojava.bio.dp.DPMatrix.class - [JAR]

├─ org.biojava.bio.dp.DotState.class - [JAR]

├─ org.biojava.bio.dp.EmissionState.class - [JAR]

├─ org.biojava.bio.dp.FlatModel.class - [JAR]

├─ org.biojava.bio.dp.HMMTrainer.class - [JAR]

├─ org.biojava.bio.dp.IllegalTransitionException.class - [JAR]

├─ org.biojava.bio.dp.MagicalState.class - [JAR]

├─ org.biojava.bio.dp.MarkovModel.class - [JAR]

├─ org.biojava.bio.dp.ModelInState.class - [JAR]

├─ org.biojava.bio.dp.ModelTrainer.class - [JAR]

├─ org.biojava.bio.dp.ProfileHMM.class - [JAR]

├─ org.biojava.bio.dp.ScoreType.class - [JAR]

├─ org.biojava.bio.dp.SimpleDotState.class - [JAR]

├─ org.biojava.bio.dp.SimpleEmissionState.class - [JAR]

├─ org.biojava.bio.dp.SimpleHMMTrainer.class - [JAR]

├─ org.biojava.bio.dp.SimpleMarkovModel.class - [JAR]

├─ org.biojava.bio.dp.SimpleModelInState.class - [JAR]

├─ org.biojava.bio.dp.SimpleModelTrainer.class - [JAR]

├─ org.biojava.bio.dp.SimpleStatePath.class - [JAR]

├─ org.biojava.bio.dp.SimpleWeightMatrix.class - [JAR]

├─ org.biojava.bio.dp.State.class - [JAR]

├─ org.biojava.bio.dp.StatePath.class - [JAR]

├─ org.biojava.bio.dp.StoppingCriteria.class - [JAR]

├─ org.biojava.bio.dp.Trainable.class - [JAR]

├─ org.biojava.bio.dp.TrainerTransition.class - [JAR]

├─ org.biojava.bio.dp.TrainingAlgorithm.class - [JAR]

├─ org.biojava.bio.dp.Transition.class - [JAR]

├─ org.biojava.bio.dp.TransitionTrainer.class - [JAR]

├─ org.biojava.bio.dp.WMAsMM.class - [JAR]

├─ org.biojava.bio.dp.WeightMatrix.class - [JAR]

├─ org.biojava.bio.dp.WeightMatrixAnnotator.class - [JAR]

├─ org.biojava.bio.dp.XmlMarkovModel.class - [JAR]

org.biojava.bio.program.tagvalue

├─ org.biojava.bio.program.tagvalue.AbstractWrapper.class - [JAR]

├─ org.biojava.bio.program.tagvalue.Aggregator.class - [JAR]

├─ org.biojava.bio.program.tagvalue.AnnotationBuilder.class - [JAR]

├─ org.biojava.bio.program.tagvalue.BoundaryFinder.class - [JAR]

├─ org.biojava.bio.program.tagvalue.ChangeTable.class - [JAR]

├─ org.biojava.bio.program.tagvalue.Echo.class - [JAR]

├─ org.biojava.bio.program.tagvalue.Formats.class - [JAR]

├─ org.biojava.bio.program.tagvalue.Index2Model.class - [JAR]

├─ org.biojava.bio.program.tagvalue.Indexer.class - [JAR]

├─ org.biojava.bio.program.tagvalue.Indexer2.class - [JAR]

├─ org.biojava.bio.program.tagvalue.LineSplitParser.class - [JAR]

├─ org.biojava.bio.program.tagvalue.MultiTagger.class - [JAR]

├─ org.biojava.bio.program.tagvalue.Parser.class - [JAR]

├─ org.biojava.bio.program.tagvalue.ParserListener.class - [JAR]

├─ org.biojava.bio.program.tagvalue.PropertyChanger.class - [JAR]

├─ org.biojava.bio.program.tagvalue.RegexChanger.class - [JAR]

├─ org.biojava.bio.program.tagvalue.RegexFieldFinder.class - [JAR]

├─ org.biojava.bio.program.tagvalue.RegexParser.class - [JAR]

├─ org.biojava.bio.program.tagvalue.RegexSplitter.class - [JAR]

├─ org.biojava.bio.program.tagvalue.SimpleTagValueWrapper.class - [JAR]

├─ org.biojava.bio.program.tagvalue.StateMachine.class - [JAR]

├─ org.biojava.bio.program.tagvalue.TagDelegator.class - [JAR]

├─ org.biojava.bio.program.tagvalue.TagDropper.class - [JAR]

├─ org.biojava.bio.program.tagvalue.TagMapper.class - [JAR]

├─ org.biojava.bio.program.tagvalue.TagRenamer.class - [JAR]

├─ org.biojava.bio.program.tagvalue.TagValue.class - [JAR]

├─ org.biojava.bio.program.tagvalue.TagValueContext.class - [JAR]

├─ org.biojava.bio.program.tagvalue.TagValueListener.class - [JAR]

├─ org.biojava.bio.program.tagvalue.TagValueParser.class - [JAR]

├─ org.biojava.bio.program.tagvalue.TagValueWrapper.class - [JAR]

├─ org.biojava.bio.program.tagvalue.ValueChanger.class - [JAR]

org.biojavax.bio.alignment.blast

├─ org.biojavax.bio.alignment.blast.RemoteQBlastAlignmentProperties.class - [JAR]

├─ org.biojavax.bio.alignment.blast.RemoteQBlastOutputFormat.class - [JAR]

├─ org.biojavax.bio.alignment.blast.RemoteQBlastOutputProperties.class - [JAR]

├─ org.biojavax.bio.alignment.blast.RemoteQBlastService.class - [JAR]

org.biojava.bio.seq.distributed

├─ org.biojava.bio.seq.distributed.DistComponentFeature.class - [JAR]

├─ org.biojava.bio.seq.distributed.DistDataSource.class - [JAR]

├─ org.biojava.bio.seq.distributed.DistProjectionContext.class - [JAR]

├─ org.biojava.bio.seq.distributed.DistributedSequence.class - [JAR]

├─ org.biojava.bio.seq.distributed.DistributedSequenceDB.class - [JAR]

├─ org.biojava.bio.seq.distributed.GFFDataSource.class - [JAR]

├─ org.biojava.bio.seq.distributed.SequenceDBDataSource.class - [JAR]

org.biojava.bio.taxa

├─ org.biojava.bio.taxa.AbstractTaxon.class - [JAR]

├─ org.biojava.bio.taxa.CircularReferenceException.class - [JAR]

├─ org.biojava.bio.taxa.EbiFormat.class - [JAR]

├─ org.biojava.bio.taxa.SimpleTaxon.class - [JAR]

├─ org.biojava.bio.taxa.SimpleTaxonFactory.class - [JAR]

├─ org.biojava.bio.taxa.Taxon.class - [JAR]

├─ org.biojava.bio.taxa.TaxonFactory.class - [JAR]

├─ org.biojava.bio.taxa.TaxonParser.class - [JAR]

├─ org.biojava.bio.taxa.WeakTaxon.class - [JAR]

├─ org.biojava.bio.taxa.WeakTaxonFactory.class - [JAR]

org.biojava.bio.seq.impl

├─ org.biojava.bio.seq.impl.AssembledSymbolList.class - [JAR]

├─ org.biojava.bio.seq.impl.DummySequence.class - [JAR]

├─ org.biojava.bio.seq.impl.FeatureImpl.class - [JAR]

├─ org.biojava.bio.seq.impl.LazyFilterFeatureHolder.class - [JAR]

├─ org.biojava.bio.seq.impl.NewAssembledSymbolList.class - [JAR]

├─ org.biojava.bio.seq.impl.RevCompSequence.class - [JAR]

├─ org.biojava.bio.seq.impl.SimpleFeature.class - [JAR]

├─ org.biojava.bio.seq.impl.SimpleFramedFeature.class - [JAR]

├─ org.biojava.bio.seq.impl.SimpleGappedSequence.class - [JAR]

├─ org.biojava.bio.seq.impl.SimpleHomologyFeature.class - [JAR]

├─ org.biojava.bio.seq.impl.SimpleRemoteFeature.class - [JAR]

├─ org.biojava.bio.seq.impl.SimpleRestrictionSite.class - [JAR]

├─ org.biojava.bio.seq.impl.SimpleSequence.class - [JAR]

├─ org.biojava.bio.seq.impl.SimpleSequenceFactory.class - [JAR]

├─ org.biojava.bio.seq.impl.SimpleSimilarityPairFeature.class - [JAR]

├─ org.biojava.bio.seq.impl.SimpleStrandedFeature.class - [JAR]

├─ org.biojava.bio.seq.impl.SubSequence.class - [JAR]

├─ org.biojava.bio.seq.impl.TemplateUtils.class - [JAR]

├─ org.biojava.bio.seq.impl.ViewSequence.class - [JAR]

org.biojava.bio.program.gff3

├─ org.biojava.bio.program.gff3.GFF3DocumentHandler.class - [JAR]

├─ org.biojava.bio.program.gff3.GFF3Parser.class - [JAR]

├─ org.biojava.bio.program.gff3.GFF3Record.class - [JAR]

org.biojava.stats.svm

├─ org.biojava.stats.svm.AbstractSVMClassifierModel.class - [JAR]

├─ org.biojava.stats.svm.AbstractSVMTarget.class - [JAR]

├─ org.biojava.stats.svm.CachingKernel.class - [JAR]

├─ org.biojava.stats.svm.DiagonalAddKernel.class - [JAR]

├─ org.biojava.stats.svm.DiagonalCachingKernel.class - [JAR]

├─ org.biojava.stats.svm.ItemValue.class - [JAR]

├─ org.biojava.stats.svm.LinearKernel.class - [JAR]

├─ org.biojava.stats.svm.ListSumKernel.class - [JAR]

├─ org.biojava.stats.svm.NestedKernel.class - [JAR]

├─ org.biojava.stats.svm.NormalizingKernel.class - [JAR]

├─ org.biojava.stats.svm.PolynomialKernel.class - [JAR]

├─ org.biojava.stats.svm.RadialBaseKernel.class - [JAR]

├─ org.biojava.stats.svm.SMORegressionTrainer.class - [JAR]

├─ org.biojava.stats.svm.SMOTrainer.class - [JAR]

├─ org.biojava.stats.svm.SVMClassifierModel.class - [JAR]

├─ org.biojava.stats.svm.SVMKernel.class - [JAR]

├─ org.biojava.stats.svm.SVMRegressionModel.class - [JAR]

├─ org.biojava.stats.svm.SVMTarget.class - [JAR]

├─ org.biojava.stats.svm.SigmoidKernel.class - [JAR]

├─ org.biojava.stats.svm.SimpleItemValue.class - [JAR]

├─ org.biojava.stats.svm.SimpleSVMClassifierModel.class - [JAR]

├─ org.biojava.stats.svm.SimpleSVMTarget.class - [JAR]

├─ org.biojava.stats.svm.SparseVector.class - [JAR]

├─ org.biojava.stats.svm.TrainingContext.class - [JAR]

├─ org.biojava.stats.svm.TrainingEvent.class - [JAR]

├─ org.biojava.stats.svm.TrainingListener.class - [JAR]

org.biojava.bio.program.homologene

├─ org.biojava.bio.program.homologene.AbstractOrthoPairCollection.class - [JAR]

├─ org.biojava.bio.program.homologene.AbstractOrthoPairSet.class - [JAR]

├─ org.biojava.bio.program.homologene.AbstractOrthologueSet.class - [JAR]

├─ org.biojava.bio.program.homologene.DuplicateTaxonException.class - [JAR]

├─ org.biojava.bio.program.homologene.HomologeneBuilder.class - [JAR]

├─ org.biojava.bio.program.homologene.HomologeneDB.class - [JAR]

├─ org.biojava.bio.program.homologene.HomologeneTools.class - [JAR]

├─ org.biojava.bio.program.homologene.OrthoPair.class - [JAR]

├─ org.biojava.bio.program.homologene.OrthoPairCollection.class - [JAR]

├─ org.biojava.bio.program.homologene.OrthoPairFilter.class - [JAR]

├─ org.biojava.bio.program.homologene.OrthoPairSet.class - [JAR]

├─ org.biojava.bio.program.homologene.OrthoPairSetFilter.class - [JAR]

├─ org.biojava.bio.program.homologene.Orthologue.class - [JAR]

├─ org.biojava.bio.program.homologene.OrthologueFilter.class - [JAR]

├─ org.biojava.bio.program.homologene.OrthologueSet.class - [JAR]

├─ org.biojava.bio.program.homologene.SimilarityType.class - [JAR]

├─ org.biojava.bio.program.homologene.SimpleHomologeneBuilder.class - [JAR]

├─ org.biojava.bio.program.homologene.SimpleHomologeneDB.class - [JAR]

├─ org.biojava.bio.program.homologene.SimpleOrthoPair.class - [JAR]

├─ org.biojava.bio.program.homologene.SimpleOrthoPairCollection.class - [JAR]

├─ org.biojava.bio.program.homologene.SimpleOrthoPairSet.class - [JAR]

├─ org.biojava.bio.program.homologene.SimpleOrthologue.class - [JAR]

├─ org.biojava.bio.program.homologene.SimpleOrthologueSet.class - [JAR]

├─ org.biojava.bio.program.homologene.Taxon.class - [JAR]

org.biojava.ontology

├─ org.biojava.ontology.AbstractTerm.class - [JAR]

├─ org.biojava.ontology.AlreadyExistsException.class - [JAR]

├─ org.biojava.ontology.DefaultOps.class - [JAR]

├─ org.biojava.ontology.IntegerOntology.class - [JAR]

├─ org.biojava.ontology.InvalidTermException.class - [JAR]

├─ org.biojava.ontology.OntoTools.class - [JAR]

├─ org.biojava.ontology.Ontology.class - [JAR]

├─ org.biojava.ontology.OntologyException.class - [JAR]

├─ org.biojava.ontology.OntologyFactory.class - [JAR]

├─ org.biojava.ontology.OntologyOps.class - [JAR]

├─ org.biojava.ontology.OntologyTerm.class - [JAR]

├─ org.biojava.ontology.RemoteTerm.class - [JAR]

├─ org.biojava.ontology.Synonym.class - [JAR]

├─ org.biojava.ontology.Term.class - [JAR]

├─ org.biojava.ontology.Triple.class - [JAR]

├─ org.biojava.ontology.Variable.class - [JAR]

org.biojava.bio.program.xml

├─ org.biojava.bio.program.xml.BaseXMLWriter.class - [JAR]

├─ org.biojava.bio.program.xml.SimpleXMLEmitter.class - [JAR]

org.biojavax.ga

├─ org.biojavax.ga.GAStoppingCriteria.class - [JAR]

├─ org.biojavax.ga.GeneticAlgorithm.class - [JAR]

├─ org.biojavax.ga.Organism.class - [JAR]

├─ org.biojavax.ga.Population.class - [JAR]

org.biojava.bio.dist

├─ org.biojava.bio.dist.AbstractDistribution.class - [JAR]

├─ org.biojava.bio.dist.AbstractOrderNDistribution.class - [JAR]

├─ org.biojava.bio.dist.Count.class - [JAR]

├─ org.biojava.bio.dist.Distribution.class - [JAR]

├─ org.biojava.bio.dist.DistributionFactory.class - [JAR]

├─ org.biojava.bio.dist.DistributionTools.class - [JAR]

├─ org.biojava.bio.dist.DistributionTrainer.class - [JAR]

├─ org.biojava.bio.dist.DistributionTrainerContext.class - [JAR]

├─ org.biojava.bio.dist.GapDistribution.class - [JAR]

├─ org.biojava.bio.dist.GeneralNthOrderDistribution.class - [JAR]

├─ org.biojava.bio.dist.IgnoreCountsTrainer.class - [JAR]

├─ org.biojava.bio.dist.IndexedCount.class - [JAR]

├─ org.biojava.bio.dist.IndexedNthOrderDistribution.class - [JAR]

├─ org.biojava.bio.dist.OrderNDistribution.class - [JAR]

├─ org.biojava.bio.dist.OrderNDistributionFactory.class - [JAR]

├─ org.biojava.bio.dist.PairDistribution.class - [JAR]

├─ org.biojava.bio.dist.SimpleDistribution.class - [JAR]

├─ org.biojava.bio.dist.SimpleDistributionTrainer.class - [JAR]

├─ org.biojava.bio.dist.SimpleDistributionTrainerContext.class - [JAR]

├─ org.biojava.bio.dist.TranslatedDistribution.class - [JAR]

├─ org.biojava.bio.dist.UniformDistribution.class - [JAR]

├─ org.biojava.bio.dist.UntrainableDistribution.class - [JAR]

├─ org.biojava.bio.dist.XMLDistributionReader.class - [JAR]

├─ org.biojava.bio.dist.XMLDistributionWriter.class - [JAR]

org.biojava.utils.io

├─ org.biojava.utils.io.CachingInputStream.class - [JAR]

├─ org.biojava.utils.io.CountedBufferedReader.class - [JAR]

├─ org.biojava.utils.io.FlatFileCache.class - [JAR]

├─ org.biojava.utils.io.InputStreamProvider.class - [JAR]

├─ org.biojava.utils.io.LargeBuffer.class - [JAR]

├─ org.biojava.utils.io.RAF.class - [JAR]

├─ org.biojava.utils.io.RandomAccessReader.class - [JAR]

├─ org.biojava.utils.io.Seekable.class - [JAR]

├─ org.biojava.utils.io.SoftHashMap.class - [JAR]

├─ org.biojava.utils.io.UncompressInputStream.class - [JAR]

org.biojavax.bio.seq

├─ org.biojavax.bio.seq.CompoundRichLocation.class - [JAR]

├─ org.biojavax.bio.seq.DummyRichSequenceHandler.class - [JAR]

├─ org.biojavax.bio.seq.EmptyRichLocation.class - [JAR]

├─ org.biojavax.bio.seq.InfinitelyAmbiguousSymbolList.class - [JAR]

├─ org.biojavax.bio.seq.MultiSourceCompoundRichLocation.class - [JAR]

├─ org.biojavax.bio.seq.Position.class - [JAR]

├─ org.biojavax.bio.seq.PositionResolver.class - [JAR]

├─ org.biojavax.bio.seq.RichFeature.class - [JAR]

├─ org.biojavax.bio.seq.RichFeatureRelationship.class - [JAR]

├─ org.biojavax.bio.seq.RichFeatureRelationshipHolder.class - [JAR]

├─ org.biojavax.bio.seq.RichLocation.class - [JAR]

├─ org.biojavax.bio.seq.RichSequence.class - [JAR]

├─ org.biojavax.bio.seq.RichSequenceHandler.class - [JAR]

├─ org.biojavax.bio.seq.RichSequenceIterator.class - [JAR]

├─ org.biojavax.bio.seq.SimplePosition.class - [JAR]

├─ org.biojavax.bio.seq.SimpleRichFeature.class - [JAR]

├─ org.biojavax.bio.seq.SimpleRichFeatureRelationship.class - [JAR]

├─ org.biojavax.bio.seq.SimpleRichLocation.class - [JAR]

├─ org.biojavax.bio.seq.SimpleRichSequence.class - [JAR]

├─ org.biojavax.bio.seq.ThinRichSequence.class - [JAR]

org.biojava.bio.seq.projection

├─ org.biojava.bio.seq.projection.ProjectedFeature.class - [JAR]

├─ org.biojava.bio.seq.projection.ProjectedFeatureHolder.class - [JAR]

├─ org.biojava.bio.seq.projection.Projection.class - [JAR]

├─ org.biojava.bio.seq.projection.ProjectionContext.class - [JAR]

├─ org.biojava.bio.seq.projection.ProjectionEngine.class - [JAR]

├─ org.biojava.bio.seq.projection.ProjectionUtils.class - [JAR]

├─ org.biojava.bio.seq.projection.ReparentContext.class - [JAR]

├─ org.biojava.bio.seq.projection.TranslateFlipContext.class - [JAR]

org.biojava.bio.program.blast2html

├─ org.biojava.bio.program.blast2html.AbstractAlignmentStyler.class - [JAR]

├─ org.biojava.bio.program.blast2html.AlignmentMarker.class - [JAR]

├─ org.biojava.bio.program.blast2html.AlignmentStyler.class - [JAR]

├─ org.biojava.bio.program.blast2html.Blast2HTMLHandler.class - [JAR]

├─ org.biojava.bio.program.blast2html.BlastLikeAlignment.class - [JAR]

├─ org.biojava.bio.program.blast2html.BlastMatrixAlignmentStyler.class - [JAR]

├─ org.biojava.bio.program.blast2html.ColourCommand.class - [JAR]

├─ org.biojava.bio.program.blast2html.DatabaseURLGenerator.class - [JAR]

├─ org.biojava.bio.program.blast2html.DefaultURLGeneratorFactory.class - [JAR]

├─ org.biojava.bio.program.blast2html.DetailHit.class - [JAR]

├─ org.biojava.bio.program.blast2html.EbiDatabaseURLGenerator.class - [JAR]

├─ org.biojava.bio.program.blast2html.HSP.class - [JAR]

├─ org.biojava.bio.program.blast2html.HSPSummary.class - [JAR]

├─ org.biojava.bio.program.blast2html.HTMLRenderer.class - [JAR]

├─ org.biojava.bio.program.blast2html.HitDescription.class - [JAR]

├─ org.biojava.bio.program.blast2html.HitId.class - [JAR]

├─ org.biojava.bio.program.blast2html.HitSummary.class - [JAR]

├─ org.biojava.bio.program.blast2html.NcbiDatabaseURLGenerator.class - [JAR]

├─ org.biojava.bio.program.blast2html.Sequence.class - [JAR]

├─ org.biojava.bio.program.blast2html.SimpleAlignmentStyler.class - [JAR]

├─ org.biojava.bio.program.blast2html.URLGeneratorFactory.class - [JAR]