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 adam-core-0.16.0.jar file.
Once you open a JAR file, all the java classes in the JAR file will be displayed.
org.bdgenomics.adam.rdd.read
├─ org.bdgenomics.adam.rdd.read.ADAMBAMOutputFormat.class - [JAR]
├─ org.bdgenomics.adam.rdd.read.ADAMSAMOutputFormat.class - [JAR]
├─ org.bdgenomics.adam.rdd.read.AlignmentRecordRDDFunctions.class - [JAR]
├─ org.bdgenomics.adam.rdd.read.DuplicateMetrics.class - [JAR]
├─ org.bdgenomics.adam.rdd.read.FlagStat.class - [JAR]
├─ org.bdgenomics.adam.rdd.read.FlagStatMetrics.class - [JAR]
├─ org.bdgenomics.adam.rdd.read.InstrumentedADAMBAMOutputFormat.class - [JAR]
├─ org.bdgenomics.adam.rdd.read.InstrumentedADAMSAMOutputFormat.class - [JAR]
├─ org.bdgenomics.adam.rdd.read.MarkDuplicates.class - [JAR]
├─ org.bdgenomics.adam.rdd.read.Reads2PileupProcessor.class - [JAR]
org.bdgenomics.adam.projections
├─ org.bdgenomics.adam.projections.AlignmentRecordField.class - [JAR]
├─ org.bdgenomics.adam.projections.DatabaseVariantAnnotationField.class - [JAR]
├─ org.bdgenomics.adam.projections.FeatureField.class - [JAR]
├─ org.bdgenomics.adam.projections.FieldEnumeration.class - [JAR]
├─ org.bdgenomics.adam.projections.FieldValue.class - [JAR]
├─ org.bdgenomics.adam.projections.Filter.class - [JAR]
├─ org.bdgenomics.adam.projections.GenotypeField.class - [JAR]
├─ org.bdgenomics.adam.projections.NucleotideContigFragmentField.class - [JAR]
├─ org.bdgenomics.adam.projections.Projection.class - [JAR]
├─ org.bdgenomics.adam.projections.VariantCallingAnnotationsField.class - [JAR]
├─ org.bdgenomics.adam.projections.VariantField.class - [JAR]
org.bdgenomics.adam.rdd.read.comparisons
├─ org.bdgenomics.adam.rdd.read.comparisons.ComparisonTraversalEngine.class - [JAR]
org.bdgenomics.adam.metrics
├─ org.bdgenomics.adam.metrics.BaseQualityScores.class - [JAR]
├─ org.bdgenomics.adam.metrics.BooleanComparisons.class - [JAR]
├─ org.bdgenomics.adam.metrics.BucketComparisons.class - [JAR]
├─ org.bdgenomics.adam.metrics.CombinedComparisons.class - [JAR]
├─ org.bdgenomics.adam.metrics.DefaultComparisons.class - [JAR]
├─ org.bdgenomics.adam.metrics.DupeMismatch.class - [JAR]
├─ org.bdgenomics.adam.metrics.LongComparisons.class - [JAR]
├─ org.bdgenomics.adam.metrics.MapQualityScores.class - [JAR]
├─ org.bdgenomics.adam.metrics.MappedPosition.class - [JAR]
├─ org.bdgenomics.adam.metrics.OverMatched.class - [JAR]
├─ org.bdgenomics.adam.metrics.PointComparisons.class - [JAR]
org.bdgenomics.adam.algorithms.smithwaterman
├─ org.bdgenomics.adam.algorithms.smithwaterman.SmithWaterman.class - [JAR]
├─ org.bdgenomics.adam.algorithms.smithwaterman.SmithWatermanConstantGapScoring.class - [JAR]
├─ org.bdgenomics.adam.algorithms.smithwaterman.SmithWatermanGapScoringFromFn.class - [JAR]
org.bdgenomics.adam.converters
├─ org.bdgenomics.adam.converters.AlignmentRecordConverter.class - [JAR]
├─ org.bdgenomics.adam.converters.AttrKey.class - [JAR]
├─ org.bdgenomics.adam.converters.FastaConverter.class - [JAR]
├─ org.bdgenomics.adam.converters.FastqRecordConverter.class - [JAR]
├─ org.bdgenomics.adam.converters.FragmentCollector.class - [JAR]
├─ org.bdgenomics.adam.converters.FragmentConverter.class - [JAR]
├─ org.bdgenomics.adam.converters.GenotypesToVariantsConverter.class - [JAR]
├─ org.bdgenomics.adam.converters.SAMRecordConverter.class - [JAR]
├─ org.bdgenomics.adam.converters.VariantAnnotationConverter.class - [JAR]
├─ org.bdgenomics.adam.converters.VariantContextConverter.class - [JAR]
org.bdgenomics.adam.instrumentation
├─ org.bdgenomics.adam.instrumentation.Timers.class - [JAR]
org.bdgenomics.adam.rdd.read.realignment
├─ org.bdgenomics.adam.rdd.read.realignment.IndelRealignmentTarget.class - [JAR]
├─ org.bdgenomics.adam.rdd.read.realignment.RealignIndels.class - [JAR]
├─ org.bdgenomics.adam.rdd.read.realignment.RealignmentTargetFinder.class - [JAR]
├─ org.bdgenomics.adam.rdd.read.realignment.TargetOrdering.class - [JAR]
├─ org.bdgenomics.adam.rdd.read.realignment.TargetSet.class - [JAR]
├─ org.bdgenomics.adam.rdd.read.realignment.TargetSetSerializer.class - [JAR]
├─ org.bdgenomics.adam.rdd.read.realignment.ZippedTargetOrdering.class - [JAR]
├─ org.bdgenomics.adam.rdd.read.realignment.ZippedTargetSet.class - [JAR]
├─ org.bdgenomics.adam.rdd.read.realignment.ZippedTargetSetSerializer.class - [JAR]
org.bdgenomics.adam.util
├─ org.bdgenomics.adam.util.AttributeUtils.class - [JAR]
├─ org.bdgenomics.adam.util.Base.class - [JAR]
├─ org.bdgenomics.adam.util.DeletionEvent.class - [JAR]
├─ org.bdgenomics.adam.util.HadoopUtil.class - [JAR]
├─ org.bdgenomics.adam.util.ImplicitJavaConversions.class - [JAR]
├─ org.bdgenomics.adam.util.InsertionEvent.class - [JAR]
├─ org.bdgenomics.adam.util.IntervalListReader.class - [JAR]
├─ org.bdgenomics.adam.util.MapTools.class - [JAR]
├─ org.bdgenomics.adam.util.MatchEvent.class - [JAR]
├─ org.bdgenomics.adam.util.MdTag.class - [JAR]
├─ org.bdgenomics.adam.util.MdTagEvent.class - [JAR]
├─ org.bdgenomics.adam.util.MismatchEvent.class - [JAR]
├─ org.bdgenomics.adam.util.NormalizationUtils.class - [JAR]
├─ org.bdgenomics.adam.util.ParquetFileTraversable.class - [JAR]
├─ org.bdgenomics.adam.util.ParquetLogger.class - [JAR]
├─ org.bdgenomics.adam.util.PhredUtils.class - [JAR]
├─ org.bdgenomics.adam.util.Pileup.class - [JAR]
├─ org.bdgenomics.adam.util.PileupEvent.class - [JAR]
├─ org.bdgenomics.adam.util.PileupTraversable.class - [JAR]
├─ org.bdgenomics.adam.util.QualityScore.class - [JAR]
├─ org.bdgenomics.adam.util.RegExp.class - [JAR]
├─ org.bdgenomics.adam.util.SequenceUtils.class - [JAR]
├─ org.bdgenomics.adam.util.TwoBitFile.class - [JAR]
├─ org.bdgenomics.adam.util.TwoBitRecord.class - [JAR]
├─ org.bdgenomics.adam.util.Util.class - [JAR]
├─ org.bdgenomics.adam.util.VcfHeaderBuilder.class - [JAR]
├─ org.bdgenomics.adam.util.VcfHeaderUtils.class - [JAR]
├─ org.bdgenomics.adam.util.VcfStringUtils.class - [JAR]
org.bdgenomics.adam.predicates
├─ org.bdgenomics.adam.predicates.ADAMPredicate.class - [JAR]
├─ org.bdgenomics.adam.predicates.AlignmentRecordConditions.class - [JAR]
├─ org.bdgenomics.adam.predicates.ColumnReaderInput.class - [JAR]
├─ org.bdgenomics.adam.predicates.FieldCondition.class - [JAR]
├─ org.bdgenomics.adam.predicates.GenotypeConditions.class - [JAR]
├─ org.bdgenomics.adam.predicates.GenotypeRecordPASSPredicate.class - [JAR]
├─ org.bdgenomics.adam.predicates.HighQualityReadPredicate.class - [JAR]
├─ org.bdgenomics.adam.predicates.LocusPredicate.class - [JAR]
├─ org.bdgenomics.adam.predicates.PredicateUtils.class - [JAR]
├─ org.bdgenomics.adam.predicates.RecordCondition.class - [JAR]
├─ org.bdgenomics.adam.predicates.UniqueMappedReadPredicate.class - [JAR]
org.bdgenomics.adam.rdd
├─ org.bdgenomics.adam.rdd.ADAMContext.class - [JAR]
├─ org.bdgenomics.adam.rdd.ADAMParquetArgs.class - [JAR]
├─ org.bdgenomics.adam.rdd.ADAMRDDFunctions.class - [JAR]
├─ org.bdgenomics.adam.rdd.ADAMSaveAnyArgs.class - [JAR]
├─ org.bdgenomics.adam.rdd.ADAMSaveArgs.class - [JAR]
├─ org.bdgenomics.adam.rdd.ADAMSequenceDictionaryRDDAggregator.class - [JAR]
├─ org.bdgenomics.adam.rdd.ADAMSpecificRecordSequenceDictionaryRDDAggregator.class - [JAR]
├─ org.bdgenomics.adam.rdd.BroadcastRegionJoin.class - [JAR]
├─ org.bdgenomics.adam.rdd.Coverage.class - [JAR]
├─ org.bdgenomics.adam.rdd.GenomeBins.class - [JAR]
├─ org.bdgenomics.adam.rdd.GenomicPositionPartitioner.class - [JAR]
├─ org.bdgenomics.adam.rdd.GenomicRegionPartitioner.class - [JAR]
├─ org.bdgenomics.adam.rdd.InstrumentedADAMAvroParquetOutputFormat.class - [JAR]
├─ org.bdgenomics.adam.rdd.ManualRegionPartitioner.class - [JAR]
├─ org.bdgenomics.adam.rdd.MultiContigNonoverlappingRegions.class - [JAR]
├─ org.bdgenomics.adam.rdd.NonoverlappingRegions.class - [JAR]
├─ org.bdgenomics.adam.rdd.PairingRDD.class - [JAR]
├─ org.bdgenomics.adam.rdd.ShuffleRegionJoin.class - [JAR]
├─ org.bdgenomics.adam.rdd.SortedIntervalPartitionJoin.class - [JAR]
org.bdgenomics.adam.rdd.features
├─ org.bdgenomics.adam.rdd.features.BEDParser.class - [JAR]
├─ org.bdgenomics.adam.rdd.features.FeatureFile.class - [JAR]
├─ org.bdgenomics.adam.rdd.features.FeatureParser.class - [JAR]
├─ org.bdgenomics.adam.rdd.features.GTFParser.class - [JAR]
├─ org.bdgenomics.adam.rdd.features.GeneFeatureRDDFunctions.class - [JAR]
├─ org.bdgenomics.adam.rdd.features.NarrowPeakParser.class - [JAR]
org.bdgenomics.adam.rdd.read.recalibration
├─ org.bdgenomics.adam.rdd.read.recalibration.AbstractCovariate.class - [JAR]
├─ org.bdgenomics.adam.rdd.read.recalibration.Aggregate.class - [JAR]
├─ org.bdgenomics.adam.rdd.read.recalibration.BaseQualityRecalibration.class - [JAR]
├─ org.bdgenomics.adam.rdd.read.recalibration.Covariate.class - [JAR]
├─ org.bdgenomics.adam.rdd.read.recalibration.CovariateKey.class - [JAR]
├─ org.bdgenomics.adam.rdd.read.recalibration.CovariateSpace.class - [JAR]
├─ org.bdgenomics.adam.rdd.read.recalibration.CycleCovariate.class - [JAR]
├─ org.bdgenomics.adam.rdd.read.recalibration.DinucCovariate.class - [JAR]
├─ org.bdgenomics.adam.rdd.read.recalibration.Observation.class - [JAR]
├─ org.bdgenomics.adam.rdd.read.recalibration.ObservationAccumulator.class - [JAR]
├─ org.bdgenomics.adam.rdd.read.recalibration.ObservationTable.class - [JAR]
├─ org.bdgenomics.adam.rdd.read.recalibration.RecalibrationTable.class - [JAR]
├─ org.bdgenomics.adam.rdd.read.recalibration.Recalibrator.class - [JAR]
org.bdgenomics.adam.core.util
├─ org.bdgenomics.adam.core.util.BuildInformation.class - [JAR]
org.bdgenomics.adam.algorithms.prefixtrie
├─ org.bdgenomics.adam.algorithms.prefixtrie.DNAPrefixTrie.class - [JAR]
├─ org.bdgenomics.adam.algorithms.prefixtrie.FixedDepthDNAPrefixTrieValues.class - [JAR]
├─ org.bdgenomics.adam.algorithms.prefixtrie.NestedFixedDepthDNAPrefixTrie.class - [JAR]
org.bdgenomics.adam.metrics.filters
├─ org.bdgenomics.adam.metrics.filters.CombinedFilter.class - [JAR]
├─ org.bdgenomics.adam.metrics.filters.ComparisonsFilter.class - [JAR]
├─ org.bdgenomics.adam.metrics.filters.GeneratorFilter.class - [JAR]
org.bdgenomics.adam.rdd.contig
├─ org.bdgenomics.adam.rdd.contig.NucleotideContigFragmentRDDFunctions.class - [JAR]
org.bdgenomics.adam.rich
├─ org.bdgenomics.adam.rich.DecadentRead.class - [JAR]
├─ org.bdgenomics.adam.rich.IlluminaOptics.class - [JAR]
├─ org.bdgenomics.adam.rich.ReferenceMappingContext.class - [JAR]
├─ org.bdgenomics.adam.rich.ReferenceSequenceContext.class - [JAR]
├─ org.bdgenomics.adam.rich.RichAlignmentRecord.class - [JAR]
├─ org.bdgenomics.adam.rich.RichCigar.class - [JAR]
├─ org.bdgenomics.adam.rich.RichGenotype.class - [JAR]
├─ org.bdgenomics.adam.rich.RichVariant.class - [JAR]
org.bdgenomics.adam.models
├─ org.bdgenomics.adam.models.Attribute.class - [JAR]
├─ org.bdgenomics.adam.models.BEDFeature.class - [JAR]
├─ org.bdgenomics.adam.models.BaseFeature.class - [JAR]
├─ org.bdgenomics.adam.models.BlockExtractable.class - [JAR]
├─ org.bdgenomics.adam.models.CDS.class - [JAR]
├─ org.bdgenomics.adam.models.Consensus.class - [JAR]
├─ org.bdgenomics.adam.models.Exon.class - [JAR]
├─ org.bdgenomics.adam.models.Extractable.class - [JAR]
├─ org.bdgenomics.adam.models.GTFFeature.class - [JAR]
├─ org.bdgenomics.adam.models.Gene.class - [JAR]
├─ org.bdgenomics.adam.models.IndelTable.class - [JAR]
├─ org.bdgenomics.adam.models.Interval.class - [JAR]
├─ org.bdgenomics.adam.models.NarrowPeakFeature.class - [JAR]
├─ org.bdgenomics.adam.models.OrderedTrackedLayout.class - [JAR]
├─ org.bdgenomics.adam.models.ProgramRecord.class - [JAR]
├─ org.bdgenomics.adam.models.ReadBucket.class - [JAR]
├─ org.bdgenomics.adam.models.ReadBucketSerializer.class - [JAR]
├─ org.bdgenomics.adam.models.RecordGroup.class - [JAR]
├─ org.bdgenomics.adam.models.RecordGroupDictionary.class - [JAR]
├─ org.bdgenomics.adam.models.ReferenceMapping.class - [JAR]
├─ org.bdgenomics.adam.models.ReferencePosition.class - [JAR]
├─ org.bdgenomics.adam.models.ReferencePositionPair.class - [JAR]
├─ org.bdgenomics.adam.models.ReferencePositionPairSerializer.class - [JAR]
├─ org.bdgenomics.adam.models.ReferencePositionSerializer.class - [JAR]
├─ org.bdgenomics.adam.models.ReferencePositionWithOrientation.class - [JAR]
├─ org.bdgenomics.adam.models.ReferencePositionWithOrientationSerializer.class - [JAR]
├─ org.bdgenomics.adam.models.ReferenceRegion.class - [JAR]
├─ org.bdgenomics.adam.models.ReferenceRegionSerializer.class - [JAR]
├─ org.bdgenomics.adam.models.ReferenceRegionWithOrientation.class - [JAR]
├─ org.bdgenomics.adam.models.ReferenceUtils.class - [JAR]
├─ org.bdgenomics.adam.models.Rod.class - [JAR]
├─ org.bdgenomics.adam.models.SAMFileHeaderWritable.class - [JAR]
├─ org.bdgenomics.adam.models.SequenceDictionary.class - [JAR]
├─ org.bdgenomics.adam.models.SequenceRecord.class - [JAR]
├─ org.bdgenomics.adam.models.SingleReadBucket.class - [JAR]
├─ org.bdgenomics.adam.models.SingleReadBucketSerializer.class - [JAR]
├─ org.bdgenomics.adam.models.SnpTable.class - [JAR]
├─ org.bdgenomics.adam.models.TagType.class - [JAR]
├─ org.bdgenomics.adam.models.TrackedLayout.class - [JAR]
├─ org.bdgenomics.adam.models.Transcript.class - [JAR]
├─ org.bdgenomics.adam.models.UTR.class - [JAR]
├─ org.bdgenomics.adam.models.VCFHeaderWritable.class - [JAR]
├─ org.bdgenomics.adam.models.VariantContext.class - [JAR]
org.bdgenomics.adam.rdd.read.correction
├─ org.bdgenomics.adam.rdd.read.correction.ErrorCorrection.class - [JAR]
├─ org.bdgenomics.adam.rdd.read.correction.TrimReads.class - [JAR]
org.bdgenomics.adam.serialization
├─ org.bdgenomics.adam.serialization.ADAMKryoRegistrator.class - [JAR]
├─ org.bdgenomics.adam.serialization.AvroSerializer.class - [JAR]
├─ org.bdgenomics.adam.serialization.InputStreamWithDecoder.class - [JAR]
org.bdgenomics.adam.algorithms.consensus
├─ org.bdgenomics.adam.algorithms.consensus.ConsensusGenerator.class - [JAR]
├─ org.bdgenomics.adam.algorithms.consensus.ConsensusGeneratorFromKnowns.class - [JAR]
├─ org.bdgenomics.adam.algorithms.consensus.ConsensusGeneratorFromReads.class - [JAR]
├─ org.bdgenomics.adam.algorithms.consensus.ConsensusGeneratorFromSmithWaterman.class - [JAR]
org.bdgenomics.adam.rdd.variation
├─ org.bdgenomics.adam.rdd.variation.ADAMVCFOutputFormat.class - [JAR]
├─ org.bdgenomics.adam.rdd.variation.ConcordanceTable.class - [JAR]
├─ org.bdgenomics.adam.rdd.variation.GenotypeRDDFunctions.class - [JAR]
├─ org.bdgenomics.adam.rdd.variation.GenotypesSummary.class - [JAR]
├─ org.bdgenomics.adam.rdd.variation.GenotypesSummaryCounts.class - [JAR]
├─ org.bdgenomics.adam.rdd.variation.GenotypesSummaryFormatting.class - [JAR]
├─ org.bdgenomics.adam.rdd.variation.VariantContextRDDFunctions.class - [JAR]
org.bdgenomics.adam.io
├─ org.bdgenomics.adam.io.InterleavedFastqInputFormat.class - [JAR]
├─ org.bdgenomics.adam.io.SingleFastqInputFormat.class - [JAR]
org.bdgenomics.adam.rdd.pileup
├─ org.bdgenomics.adam.rdd.pileup.PileupRDDFunctions.class - [JAR]
├─ org.bdgenomics.adam.rdd.pileup.RodRDDFunctions.class - [JAR]
org.bdgenomics.adam.rdd.normalization
├─ org.bdgenomics.adam.rdd.normalization.LengthNormalization.class - [JAR]
├─ org.bdgenomics.adam.rdd.normalization.ZScoreNormalization.class - [JAR]
org.bdgenomics.adam.plugins
├─ org.bdgenomics.adam.plugins.ADAMPlugin.class - [JAR]
├─ org.bdgenomics.adam.plugins.AccessControl.class - [JAR]
├─ org.bdgenomics.adam.plugins.EmptyAccessControl.class - [JAR]
