View Java Class Source Code in JAR file
- Download JD-GUI to open JAR file and explore Java source code file (.class .java)
- Click menu "File → Open File..." or just drag-and-drop the JAR file in the JD-GUI window mitcr-1.0.3.jar file.
Once you open a JAR file, all the java classes in the JAR file will be displayed.
com.milaboratory.mitcr.clsexport
├─ com.milaboratory.mitcr.clsexport.AbstractCloneSetMetadata.class - [JAR]
├─ com.milaboratory.mitcr.clsexport.AbstractCloneSetMetadataIO.class - [JAR]
├─ com.milaboratory.mitcr.clsexport.CloneClusterData.class - [JAR]
├─ com.milaboratory.mitcr.clsexport.CloneClusterDataIO.class - [JAR]
├─ com.milaboratory.mitcr.clsexport.CloneIO.class - [JAR]
├─ com.milaboratory.mitcr.clsexport.ClsExporter.class - [JAR]
├─ com.milaboratory.mitcr.clsexport.DataSetMetadata.class - [JAR]
├─ com.milaboratory.mitcr.clsexport.DataSetMetadataIO.class - [JAR]
├─ com.milaboratory.mitcr.clsexport.SCloneSetMetadata.class - [JAR]
├─ com.milaboratory.mitcr.clsexport.SCloneSetMetadataIO.class - [JAR]
com.milaboratory.util
├─ com.milaboratory.util.NullOutputStream.class - [JAR]
├─ com.milaboratory.util.TablePrintStreamAdapter.class - [JAR]
├─ com.milaboratory.util.XMLException.class - [JAR]
com.milaboratory.mitcr.statistics
├─ com.milaboratory.mitcr.statistics.AnalysisStatisticsAggregator.class - [JAR]
├─ com.milaboratory.mitcr.statistics.CloneSetQualityControl.class - [JAR]
com.milaboratory.mitcr.vdjmapping.ntree
├─ com.milaboratory.mitcr.vdjmapping.ntree.NTreeNode.class - [JAR]
├─ com.milaboratory.mitcr.vdjmapping.ntree.NTreeNodeGenerator.class - [JAR]
├─ com.milaboratory.mitcr.vdjmapping.ntree.NTreeNodeGeneratorBadDeletion.class - [JAR]
├─ com.milaboratory.mitcr.vdjmapping.ntree.NTreeNodeGeneratorBadMismatch.class - [JAR]
├─ com.milaboratory.mitcr.vdjmapping.ntree.NTreeNodeGeneratorBadMismatch3B.class - [JAR]
├─ com.milaboratory.mitcr.vdjmapping.ntree.NTreeNodeGeneratorMatchOnly.class - [JAR]
├─ com.milaboratory.mitcr.vdjmapping.ntree.NTreeSlider.class - [JAR]
├─ com.milaboratory.mitcr.vdjmapping.ntree.NucleotideInfo.class - [JAR]
├─ com.milaboratory.mitcr.vdjmapping.ntree.NucleotideInfoProvider.class - [JAR]
com.milaboratory.core.util
├─ com.milaboratory.core.util.CloneSetsComparator.class - [JAR]
├─ com.milaboratory.core.util.CloneSetsComparisonResult.class - [JAR]
├─ com.milaboratory.core.util.CompareCloneSets.class - [JAR]
com.milaboratory.mitcr.clsexport.io
├─ com.milaboratory.mitcr.clsexport.io.AbstractBinaryContainerIO.class - [JAR]
├─ com.milaboratory.mitcr.clsexport.io.BinaryContainerIO.class - [JAR]
├─ com.milaboratory.mitcr.clsexport.io.BinaryContainerReader.class - [JAR]
├─ com.milaboratory.mitcr.clsexport.io.BinaryContainerWriter.class - [JAR]
├─ com.milaboratory.mitcr.clsexport.io.DataInputPositioned.class - [JAR]
├─ com.milaboratory.mitcr.clsexport.io.DataOutputPositioned.class - [JAR]
├─ com.milaboratory.mitcr.clsexport.io.FixedBlockSize.class - [JAR]
├─ com.milaboratory.mitcr.clsexport.io.IOUtill.class - [JAR]
├─ com.milaboratory.mitcr.clsexport.io.IndexedContainerInput.class - [JAR]
├─ com.milaboratory.mitcr.clsexport.io.IndexedContainerOutput.class - [JAR]
├─ com.milaboratory.mitcr.clsexport.io.SignatureCheckError.class - [JAR]
├─ com.milaboratory.mitcr.clsexport.io.WrongStructureException.class - [JAR]
com.milaboratory.mitcr.vdjmapping
├─ com.milaboratory.mitcr.vdjmapping.AlignmentDirection.class - [JAR]
├─ com.milaboratory.mitcr.vdjmapping.DSegmentMapper.class - [JAR]
├─ com.milaboratory.mitcr.vdjmapping.DSegmentMapperFactory.class - [JAR]
├─ com.milaboratory.mitcr.vdjmapping.DSegmentMapperParameters.class - [JAR]
├─ com.milaboratory.mitcr.vdjmapping.PointSegmentMapper.class - [JAR]
├─ com.milaboratory.mitcr.vdjmapping.SearchDirection.class - [JAR]
├─ com.milaboratory.mitcr.vdjmapping.SegmentMapper.class - [JAR]
├─ com.milaboratory.mitcr.vdjmapping.SegmentMappingResult.class - [JAR]
├─ com.milaboratory.mitcr.vdjmapping.SimplestAlignment.class - [JAR]
├─ com.milaboratory.mitcr.vdjmapping.VDJSegmentsMapper.class - [JAR]
├─ com.milaboratory.mitcr.vdjmapping.VDJSegmentsMapperFactory.class - [JAR]
├─ com.milaboratory.mitcr.vdjmapping.VDJSegmentsMappingResult.class - [JAR]
├─ com.milaboratory.mitcr.vdjmapping.VJMapperListener.class - [JAR]
├─ com.milaboratory.mitcr.vdjmapping.VJSegmentMapper.class - [JAR]
├─ com.milaboratory.mitcr.vdjmapping.VJSegmentMapperFactory.class - [JAR]
├─ com.milaboratory.mitcr.vdjmapping.VJSegmentMapperParameters.class - [JAR]
├─ com.milaboratory.mitcr.vdjmapping.VJSegmentMappingResult.class - [JAR]
├─ com.milaboratory.mitcr.vdjmapping.VJSegmentMappingResultFormatter.class - [JAR]
├─ com.milaboratory.mitcr.vdjmapping.VJSegmentsMapperAdapter.class - [JAR]
com.milaboratory.core.segment
├─ com.milaboratory.core.segment.Allele.class - [JAR]
├─ com.milaboratory.core.segment.AlleleSet.class - [JAR]
├─ com.milaboratory.core.segment.CDR.class - [JAR]
├─ com.milaboratory.core.segment.Chain.class - [JAR]
├─ com.milaboratory.core.segment.DefaultSegmentLibrary.class - [JAR]
├─ com.milaboratory.core.segment.Gene.class - [JAR]
├─ com.milaboratory.core.segment.MD5ChecksumTestFail.class - [JAR]
├─ com.milaboratory.core.segment.Molecule.class - [JAR]
├─ com.milaboratory.core.segment.Segment.class - [JAR]
├─ com.milaboratory.core.segment.SegmentFamily.class - [JAR]
├─ com.milaboratory.core.segment.SegmentGroup.class - [JAR]
├─ com.milaboratory.core.segment.SegmentGroupContainer.class - [JAR]
├─ com.milaboratory.core.segment.SegmentGroupType.class - [JAR]
├─ com.milaboratory.core.segment.SegmentLibrary.class - [JAR]
├─ com.milaboratory.core.segment.SegmentSet.class - [JAR]
├─ com.milaboratory.core.segment.SegmentUtils.class - [JAR]
├─ com.milaboratory.core.segment.Species.class - [JAR]
├─ com.milaboratory.core.segment.SpeciesSegmentGroup.class - [JAR]
com.milaboratory.mitcr.clsexport.io.util
├─ com.milaboratory.mitcr.clsexport.io.util.ClassUtils.class - [JAR]
├─ com.milaboratory.mitcr.clsexport.io.util.PrimitiveArrayIO.class - [JAR]
├─ com.milaboratory.mitcr.clsexport.io.util.PrimitiveIO.class - [JAR]
├─ com.milaboratory.mitcr.clsexport.io.util.PrimitiveMapIO.class - [JAR]
com.milaboratory.mitcr
├─ com.milaboratory.mitcr.SimpleTest.class - [JAR]
com.milaboratory.mitcr.vdjmapping.tree
├─ com.milaboratory.mitcr.vdjmapping.tree.CoreVJSegmentMapper.class - [JAR]
├─ com.milaboratory.mitcr.vdjmapping.tree.OneDirectionSegmentMapper.class - [JAR]
├─ com.milaboratory.mitcr.vdjmapping.tree.STree.class - [JAR]
├─ com.milaboratory.mitcr.vdjmapping.tree.STreeResultHolder.class - [JAR]
├─ com.milaboratory.mitcr.vdjmapping.tree.SmartAlignmentSegmentMapper.class - [JAR]
├─ com.milaboratory.mitcr.vdjmapping.tree.SmartAlignmentSegmentMapperV2.class - [JAR]
├─ com.milaboratory.mitcr.vdjmapping.tree.UniDirectionSegmentMapper.class - [JAR]
com.milaboratory.mitcr.util.evolver
├─ com.milaboratory.mitcr.util.evolver.AbstractGenerator.class - [JAR]
├─ com.milaboratory.mitcr.util.evolver.ConditionsProvider.class - [JAR]
├─ com.milaboratory.mitcr.util.evolver.Generator.class - [JAR]
├─ com.milaboratory.mitcr.util.evolver.Reactor.class - [JAR]
com.milaboratory.core.io
├─ com.milaboratory.core.io.CloneSetIO.class - [JAR]
com.milaboratory.core.clone
├─ com.milaboratory.core.clone.Clone.class - [JAR]
├─ com.milaboratory.core.clone.CloneCluster.class - [JAR]
├─ com.milaboratory.core.clone.CloneClusterImpl.class - [JAR]
├─ com.milaboratory.core.clone.CloneComparator.class - [JAR]
├─ com.milaboratory.core.clone.CloneImpl.class - [JAR]
├─ com.milaboratory.core.clone.CloneSet.class - [JAR]
├─ com.milaboratory.core.clone.CloneSetClustered.class - [JAR]
├─ com.milaboratory.core.clone.CloneSetClusteredImpl.class - [JAR]
├─ com.milaboratory.core.clone.CloneSetImpl.class - [JAR]
com.milaboratory.mitcr.clsexport.io.serializers
├─ com.milaboratory.mitcr.clsexport.io.serializers.Bit2ArrayIO.class - [JAR]
├─ com.milaboratory.mitcr.clsexport.io.serializers.BitArrayIO.class - [JAR]
├─ com.milaboratory.mitcr.clsexport.io.serializers.NucleotideSQPairIO.class - [JAR]
├─ com.milaboratory.mitcr.clsexport.io.serializers.NucleotideSequenceIO.class - [JAR]
├─ com.milaboratory.mitcr.clsexport.io.serializers.SegmentGroupContainerIO.class - [JAR]
├─ com.milaboratory.mitcr.clsexport.io.serializers.SequenceQualityIO.class - [JAR]
com.milaboratory.mitcr.clusterization.penalty
├─ com.milaboratory.mitcr.clusterization.penalty.NoClusterizationPenalty.class - [JAR]
├─ com.milaboratory.mitcr.clusterization.penalty.OneMismatchPenaltyCalculator.class - [JAR]
├─ com.milaboratory.mitcr.clusterization.penalty.VDJExplicitPenalty.class - [JAR]
├─ com.milaboratory.mitcr.clusterization.penalty.VJMismatchPenalty.class - [JAR]
com.milaboratory.mitcr.qualitystrategy
├─ com.milaboratory.mitcr.qualitystrategy.DummyQualityInterpretationStrategy.class - [JAR]
├─ com.milaboratory.mitcr.qualitystrategy.GBNSBothSidesNucleotideInfoProvider.class - [JAR]
├─ com.milaboratory.mitcr.qualitystrategy.GBNSNucleotideInfoProvider.class - [JAR]
├─ com.milaboratory.mitcr.qualitystrategy.GBNSUtils.class - [JAR]
├─ com.milaboratory.mitcr.qualitystrategy.GoodBadNucleotideSequence.class - [JAR]
├─ com.milaboratory.mitcr.qualitystrategy.GoodBadNucleotideSequenceProvider.class - [JAR]
├─ com.milaboratory.mitcr.qualitystrategy.IlluminaQualityInterpretationStrategy.class - [JAR]
├─ com.milaboratory.mitcr.qualitystrategy.QualityInterpretationStrategy.class - [JAR]
├─ com.milaboratory.mitcr.qualitystrategy.QualityInterpretationStrategyDeserializer.class - [JAR]
com.milaboratory.mitcr.clonegenerator
├─ com.milaboratory.mitcr.clonegenerator.AccumulatorClone.class - [JAR]
├─ com.milaboratory.mitcr.clonegenerator.AccumulatorCloneAvrg.class - [JAR]
├─ com.milaboratory.mitcr.clonegenerator.AccumulatorCloneAvrgCompressed.class - [JAR]
├─ com.milaboratory.mitcr.clonegenerator.AccumulatorCloneAvrgStrict.class - [JAR]
├─ com.milaboratory.mitcr.clonegenerator.AccumulatorCloneFactory.class - [JAR]
├─ com.milaboratory.mitcr.clonegenerator.AccumulatorCloneMax.class - [JAR]
├─ com.milaboratory.mitcr.clonegenerator.AccumulatorCloneMaxCompressed.class - [JAR]
├─ com.milaboratory.mitcr.clonegenerator.AccumulatorCloneMaxStrict.class - [JAR]
├─ com.milaboratory.mitcr.clonegenerator.AccumulatorType.class - [JAR]
├─ com.milaboratory.mitcr.clonegenerator.AverageQualityCalculator.class - [JAR]
├─ com.milaboratory.mitcr.clonegenerator.BarcodeAggregator.class - [JAR]
├─ com.milaboratory.mitcr.clonegenerator.BasicCloneGenerator.class - [JAR]
├─ com.milaboratory.mitcr.clonegenerator.BasicCloneGeneratorParameters.class - [JAR]
├─ com.milaboratory.mitcr.clonegenerator.CloneGenerator.class - [JAR]
├─ com.milaboratory.mitcr.clonegenerator.CloneGeneratorFactory.class - [JAR]
├─ com.milaboratory.mitcr.clonegenerator.CloneGeneratorListener.class - [JAR]
├─ com.milaboratory.mitcr.clonegenerator.CloneGeneratorParameters.class - [JAR]
├─ com.milaboratory.mitcr.clonegenerator.CloneGeneratorParametersDeserializer.class - [JAR]
├─ com.milaboratory.mitcr.clonegenerator.CountVectorUtils.class - [JAR]
├─ com.milaboratory.mitcr.clonegenerator.InMemoryResultAccumulator.class - [JAR]
├─ com.milaboratory.mitcr.clonegenerator.LQFilteringOffCloneGenerator.class - [JAR]
├─ com.milaboratory.mitcr.clonegenerator.LQFilteringOffCloneGeneratorParameters.class - [JAR]
├─ com.milaboratory.mitcr.clonegenerator.LQMappingCloneGenerator.class - [JAR]
├─ com.milaboratory.mitcr.clonegenerator.LQMappingCloneGeneratorParameters.class - [JAR]
├─ com.milaboratory.mitcr.clonegenerator.OnHDDResultAccumulator.class - [JAR]
├─ com.milaboratory.mitcr.clonegenerator.ResultsAccumulator.class - [JAR]
├─ com.milaboratory.mitcr.clonegenerator.SequencingReadLink.class - [JAR]
├─ com.milaboratory.mitcr.clonegenerator.TreePackingInfo.class - [JAR]
com.milaboratory.mitcr.cli
├─ com.milaboratory.mitcr.cli.BuildInformation.class - [JAR]
├─ com.milaboratory.mitcr.cli.BuildInformationProvider.class - [JAR]
├─ com.milaboratory.mitcr.cli.ExportDetalizationLevel.class - [JAR]
├─ com.milaboratory.mitcr.cli.Main.class - [JAR]
├─ com.milaboratory.mitcr.cli.ParametersIO.class - [JAR]
├─ com.milaboratory.mitcr.cli.ReportExporter.class - [JAR]
com.milaboratory.mitcr.clsexport.io.impl
├─ com.milaboratory.mitcr.clsexport.io.impl.AbstractIndexedContainerInput.class - [JAR]
├─ com.milaboratory.mitcr.clsexport.io.impl.BBBackedLongArrayList.class - [JAR]
├─ com.milaboratory.mitcr.clsexport.io.impl.ByteArrayIndexedContainerInput.class - [JAR]
├─ com.milaboratory.mitcr.clsexport.io.impl.DataInputPositionedStream.class - [JAR]
├─ com.milaboratory.mitcr.clsexport.io.impl.DataOutputPositionedStream.class - [JAR]
├─ com.milaboratory.mitcr.clsexport.io.impl.FileIndexedContainerInput.class - [JAR]
├─ com.milaboratory.mitcr.clsexport.io.impl.FileIndexedContainerOutput.class - [JAR]
├─ com.milaboratory.mitcr.clsexport.io.impl.IByteArrayOutputStream.class - [JAR]
com.milaboratory.mitcr.vdjmapping.trivial
├─ com.milaboratory.mitcr.vdjmapping.trivial.OneSideAligner.class - [JAR]
├─ com.milaboratory.mitcr.vdjmapping.trivial.OneSideAlignmentResult.class - [JAR]
├─ com.milaboratory.mitcr.vdjmapping.trivial.TrivialSegmentMapper.class - [JAR]
├─ com.milaboratory.mitcr.vdjmapping.trivial.TrivialSegmentMapperFactory.class - [JAR]
com.milaboratory.mitcr.cdrextraction
├─ com.milaboratory.mitcr.cdrextraction.CDR3ExtractionResult.class - [JAR]
├─ com.milaboratory.mitcr.cdrextraction.CDR3ExtractionResultUtils.class - [JAR]
├─ com.milaboratory.mitcr.cdrextraction.CDR3Extractor.class - [JAR]
├─ com.milaboratory.mitcr.cdrextraction.CDR3ExtractorFactory.class - [JAR]
├─ com.milaboratory.mitcr.cdrextraction.CDR3ExtractorFactoryFromSQPair.class - [JAR]
├─ com.milaboratory.mitcr.cdrextraction.CDR3ExtractorFactoryFromSRead.class - [JAR]
├─ com.milaboratory.mitcr.cdrextraction.CDR3ExtractorFromPRead.class - [JAR]
├─ com.milaboratory.mitcr.cdrextraction.CDR3ExtractorFromSQPair.class - [JAR]
├─ com.milaboratory.mitcr.cdrextraction.CDR3ExtractorFromSRead.class - [JAR]
├─ com.milaboratory.mitcr.cdrextraction.CDR3ExtractorListener.class - [JAR]
├─ com.milaboratory.mitcr.cdrextraction.CDR3ExtractorParameters.class - [JAR]
├─ com.milaboratory.mitcr.cdrextraction.CoreCDR3Extractor.class - [JAR]
├─ com.milaboratory.mitcr.cdrextraction.Strand.class - [JAR]
├─ com.milaboratory.mitcr.cdrextraction.TargetRead.class - [JAR]
com.milaboratory.mitcr.pipeline
├─ com.milaboratory.mitcr.pipeline.AnalysisListener.class - [JAR]
├─ com.milaboratory.mitcr.pipeline.AnalysisListenerCombiner.class - [JAR]
├─ com.milaboratory.mitcr.pipeline.DefaultAnalysisListener.class - [JAR]
├─ com.milaboratory.mitcr.pipeline.FullPipeline.class - [JAR]
├─ com.milaboratory.mitcr.pipeline.ParameterPresets.class - [JAR]
├─ com.milaboratory.mitcr.pipeline.Parameters.class - [JAR]
com.milaboratory.mitcr.clusterization
├─ com.milaboratory.mitcr.clusterization.CloneClusterizationType.class - [JAR]
├─ com.milaboratory.mitcr.clusterization.CloneClusterizer.class - [JAR]
├─ com.milaboratory.mitcr.clusterization.CloneClusterizerFactory.class - [JAR]
├─ com.milaboratory.mitcr.clusterization.ClusterizationListener.class - [JAR]
├─ com.milaboratory.mitcr.clusterization.DummyCloneClusterizer.class - [JAR]
├─ com.milaboratory.mitcr.clusterization.MonolayerCluster.class - [JAR]
├─ com.milaboratory.mitcr.clusterization.PenaltyBasedFastClusterizer.class - [JAR]
├─ com.milaboratory.mitcr.clusterization.PenaltyCalculator.class - [JAR]
