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 tassel-5.2.90.jar file.
Once you open a JAR file, all the java classes in the JAR file will be displayed.
net.maizegenetics.analysis.gbs.pana
├─ net.maizegenetics.analysis.gbs.pana.PanAAddPosToTagMapPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.pana.PanABuildPivotTBTPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.pana.PanABuildTagBlockPosPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.pana.PanABuildTagGWASMapPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.pana.PanABuildTrainingSetPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.pana.PanAFilteringTagMapPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.pana.PanAH5ToAnchorPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.pana.PanAMergeMappingResultPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.pana.PanAModelTrainingPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.pana.PanAPredictionPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.pana.PanAReadDigestPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.pana.PanAReadToKmerPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.pana.PanASamToMultiPositionTOPMPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.pana.PanASplitTBTPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.pana.PanASplitTagBlockPosPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.pana.PanATagGWASMappingPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.pana.PanATagMapToFastaPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.pana.PanAUsageExample.class - [JAR]
net.maizegenetics.pipeline
├─ net.maizegenetics.pipeline.TasselPipeline.class - [JAR]
├─ net.maizegenetics.pipeline.TasselPipelineStepsDialog.class - [JAR]
├─ net.maizegenetics.pipeline.TasselPipelineXMLUtil.class - [JAR]
net.maizegenetics.analysis.popgen
├─ net.maizegenetics.analysis.popgen.DiversityAnalyses.class - [JAR]
├─ net.maizegenetics.analysis.popgen.DiversityResults.class - [JAR]
├─ net.maizegenetics.analysis.popgen.DonorHypoth.class - [JAR]
├─ net.maizegenetics.analysis.popgen.LDResult.class - [JAR]
├─ net.maizegenetics.analysis.popgen.LinkageDiseqDialog.class - [JAR]
├─ net.maizegenetics.analysis.popgen.LinkageDiseqDisplayDialog.class - [JAR]
├─ net.maizegenetics.analysis.popgen.LinkageDiseqDisplayPlugin.class - [JAR]
├─ net.maizegenetics.analysis.popgen.LinkageDisequilibrium.class - [JAR]
├─ net.maizegenetics.analysis.popgen.LinkageDisequilibriumComponent.class - [JAR]
├─ net.maizegenetics.analysis.popgen.LinkageDisequilibriumMinimapComponent.class - [JAR]
├─ net.maizegenetics.analysis.popgen.LinkageDisequilibriumPlugin.class - [JAR]
├─ net.maizegenetics.analysis.popgen.PolymorphismDistribution.class - [JAR]
├─ net.maizegenetics.analysis.popgen.PolymorphismDistributionResults.class - [JAR]
├─ net.maizegenetics.analysis.popgen.SequenceDiversityPlugin.class - [JAR]
net.maizegenetics.stats.statistics
├─ net.maizegenetics.stats.statistics.ApproxFastChiSquareDistribution.class - [JAR]
├─ net.maizegenetics.stats.statistics.ChiSquareDistribution.class - [JAR]
├─ net.maizegenetics.stats.statistics.ChiSquareTest.class - [JAR]
├─ net.maizegenetics.stats.statistics.ContigencyTable.class - [JAR]
├─ net.maizegenetics.stats.statistics.ExponentialDistribution.class - [JAR]
├─ net.maizegenetics.stats.statistics.FisherExact.class - [JAR]
├─ net.maizegenetics.stats.statistics.GammaDistribution.class - [JAR]
├─ net.maizegenetics.stats.statistics.LikelihoodRatioTest.class - [JAR]
├─ net.maizegenetics.stats.statistics.NormalDistribution.class - [JAR]
├─ net.maizegenetics.stats.statistics.ParetoDistribution.class - [JAR]
├─ net.maizegenetics.stats.statistics.PenalizedLikelihood.class - [JAR]
net.maizegenetics.taxa.distance
├─ net.maizegenetics.taxa.distance.DistanceMatrix.class - [JAR]
├─ net.maizegenetics.taxa.distance.DistanceMatrixBuilder.class - [JAR]
├─ net.maizegenetics.taxa.distance.DistanceMatrixUtils.class - [JAR]
├─ net.maizegenetics.taxa.distance.DistanceMatrixWithCounts.class - [JAR]
├─ net.maizegenetics.taxa.distance.ReadDistanceMatrix.class - [JAR]
├─ net.maizegenetics.taxa.distance.WriteDistanceMatrix.class - [JAR]
net.maizegenetics.analysis.clustering
├─ net.maizegenetics.analysis.clustering.Haplotype.class - [JAR]
├─ net.maizegenetics.analysis.clustering.HaplotypeCluster.class - [JAR]
├─ net.maizegenetics.analysis.clustering.HaplotypeClusterer.class - [JAR]
net.maizegenetics.matrixalgebra.decomposition
├─ net.maizegenetics.matrixalgebra.decomposition.BlasEigenvalueDecomposition.class - [JAR]
├─ net.maizegenetics.matrixalgebra.decomposition.BlasSingularValueDecomposition.class - [JAR]
├─ net.maizegenetics.matrixalgebra.decomposition.ColtEigenvalueDecomposition.class - [JAR]
├─ net.maizegenetics.matrixalgebra.decomposition.ColtSingularValueDecomposition.class - [JAR]
├─ net.maizegenetics.matrixalgebra.decomposition.EJMLEigenvalueDecomposition.class - [JAR]
├─ net.maizegenetics.matrixalgebra.decomposition.EJMLSingularValueDecomposition.class - [JAR]
├─ net.maizegenetics.matrixalgebra.decomposition.EigenvalueDecomposition.class - [JAR]
├─ net.maizegenetics.matrixalgebra.decomposition.QRDecomposition.class - [JAR]
├─ net.maizegenetics.matrixalgebra.decomposition.SingularValueDecomposition.class - [JAR]
├─ net.maizegenetics.matrixalgebra.decomposition.SymmetricEigenvalueDecomposition.class - [JAR]
net.maizegenetics.progress
├─ net.maizegenetics.progress.PluginProgressUnit.class - [JAR]
├─ net.maizegenetics.progress.ProgressPanel.class - [JAR]
net.maizegenetics.dna
├─ net.maizegenetics.dna.BaseEncoder.class - [JAR]
├─ net.maizegenetics.dna.WHICH_ALLELE.class - [JAR]
net.maizegenetics.tassel
├─ net.maizegenetics.tassel.AboutBox.class - [JAR]
├─ net.maizegenetics.tassel.DataTreePanel.class - [JAR]
├─ net.maizegenetics.tassel.HelpDialog.class - [JAR]
├─ net.maizegenetics.tassel.PreferencesDialog.class - [JAR]
├─ net.maizegenetics.tassel.SeqViewerPanel.class - [JAR]
├─ net.maizegenetics.tassel.ShowParameterCachePlugin.class - [JAR]
├─ net.maizegenetics.tassel.TASSELMainApp.class - [JAR]
├─ net.maizegenetics.tassel.TASSELMainFrame.class - [JAR]
├─ net.maizegenetics.tassel.TableReportPanel.class - [JAR]
├─ net.maizegenetics.tassel.TasselLogging.class - [JAR]
├─ net.maizegenetics.tassel.TasselVersions.class - [JAR]
net.maizegenetics.stats.linearmodels
├─ net.maizegenetics.stats.linearmodels.BasicLevel.class - [JAR]
├─ net.maizegenetics.stats.linearmodels.BasicShuffler.class - [JAR]
├─ net.maizegenetics.stats.linearmodels.CovariateModelEffect.class - [JAR]
├─ net.maizegenetics.stats.linearmodels.FactorModelEffect.class - [JAR]
├─ net.maizegenetics.stats.linearmodels.Level.class - [JAR]
├─ net.maizegenetics.stats.linearmodels.LinearModelForStepwiseRegression.class - [JAR]
├─ net.maizegenetics.stats.linearmodels.LinearModelUtils.class - [JAR]
├─ net.maizegenetics.stats.linearmodels.ModelEffect.class - [JAR]
├─ net.maizegenetics.stats.linearmodels.ModelEffectUtils.class - [JAR]
├─ net.maizegenetics.stats.linearmodels.NestedCovariateModelEffect.class - [JAR]
├─ net.maizegenetics.stats.linearmodels.NestedFactorModelEffect.class - [JAR]
├─ net.maizegenetics.stats.linearmodels.PartitionedLinearModel.class - [JAR]
├─ net.maizegenetics.stats.linearmodels.SolveByOrthogonalizing.class - [JAR]
├─ net.maizegenetics.stats.linearmodels.SweepFast.class - [JAR]
├─ net.maizegenetics.stats.linearmodels.SweepFastLinearModel.class - [JAR]
├─ net.maizegenetics.stats.linearmodels.SweepFastNestedModel.class - [JAR]
├─ net.maizegenetics.stats.linearmodels.SymmetricMatrixInverterDM.class - [JAR]
├─ net.maizegenetics.stats.linearmodels.WithinPopulationPermuter.class - [JAR]
net.maizegenetics.analysis.gbs.neobio
├─ net.maizegenetics.analysis.gbs.neobio.AlignmentBlock.class - [JAR]
├─ net.maizegenetics.analysis.gbs.neobio.BasicScoringScheme.class - [JAR]
├─ net.maizegenetics.analysis.gbs.neobio.CharSequence.class - [JAR]
├─ net.maizegenetics.analysis.gbs.neobio.CrochemoreLandauZivUkelson.class - [JAR]
├─ net.maizegenetics.analysis.gbs.neobio.CrochemoreLandauZivUkelsonGlobalAlignment.class - [JAR]
├─ net.maizegenetics.analysis.gbs.neobio.CrochemoreLandauZivUkelsonLocalAlignment.class - [JAR]
├─ net.maizegenetics.analysis.gbs.neobio.Factor.class - [JAR]
├─ net.maizegenetics.analysis.gbs.neobio.FactorSequence.class - [JAR]
├─ net.maizegenetics.analysis.gbs.neobio.IncompatibleScoringSchemeException.class - [JAR]
├─ net.maizegenetics.analysis.gbs.neobio.InvalidScoringMatrixException.class - [JAR]
├─ net.maizegenetics.analysis.gbs.neobio.InvalidSequenceException.class - [JAR]
├─ net.maizegenetics.analysis.gbs.neobio.LocalAlignmentBlock.class - [JAR]
├─ net.maizegenetics.analysis.gbs.neobio.Matrix.class - [JAR]
├─ net.maizegenetics.analysis.gbs.neobio.NeedlemanWunsch.class - [JAR]
├─ net.maizegenetics.analysis.gbs.neobio.OutMatrix.class - [JAR]
├─ net.maizegenetics.analysis.gbs.neobio.PairwiseAlignment.class - [JAR]
├─ net.maizegenetics.analysis.gbs.neobio.PairwiseAlignmentAlgorithm.class - [JAR]
├─ net.maizegenetics.analysis.gbs.neobio.ScoringMatrix.class - [JAR]
├─ net.maizegenetics.analysis.gbs.neobio.ScoringScheme.class - [JAR]
├─ net.maizegenetics.analysis.gbs.neobio.Smawk.class - [JAR]
├─ net.maizegenetics.analysis.gbs.neobio.SmithWaterman.class - [JAR]
├─ net.maizegenetics.analysis.gbs.neobio.Trie.class - [JAR]
net.maizegenetics.stats.math
├─ net.maizegenetics.stats.math.ErrorFunction.class - [JAR]
├─ net.maizegenetics.stats.math.GammaFunction.class - [JAR]
├─ net.maizegenetics.stats.math.MersenneTwisterFast.class - [JAR]
├─ net.maizegenetics.stats.math.OrderEnumerator.class - [JAR]
├─ net.maizegenetics.stats.math.OrthogonalHints.class - [JAR]
net.maizegenetics.analysis.distance
├─ net.maizegenetics.analysis.distance.AMatrixPlugin.class - [JAR]
├─ net.maizegenetics.analysis.distance.AddDistanceMatrixPlugin.class - [JAR]
├─ net.maizegenetics.analysis.distance.DistanceMatrixPlugin.class - [JAR]
├─ net.maizegenetics.analysis.distance.DistanceMatrixRangesPlugin.class - [JAR]
├─ net.maizegenetics.analysis.distance.DominanceNormalizedIBSMatrix.class - [JAR]
├─ net.maizegenetics.analysis.distance.DominanceRelationshipMatrix.class - [JAR]
├─ net.maizegenetics.analysis.distance.EndelmanDistanceMatrix.class - [JAR]
├─ net.maizegenetics.analysis.distance.GCTADistanceMatrix.class - [JAR]
├─ net.maizegenetics.analysis.distance.HMatrixPlugin.class - [JAR]
├─ net.maizegenetics.analysis.distance.IBSDistanceMatrix.class - [JAR]
├─ net.maizegenetics.analysis.distance.IBSDistanceMatrix2Alleles.class - [JAR]
├─ net.maizegenetics.analysis.distance.IBSDistanceMatrix3Alleles.class - [JAR]
├─ net.maizegenetics.analysis.distance.IBSDistanceMatrixOneByAll.class - [JAR]
├─ net.maizegenetics.analysis.distance.Kinship.class - [JAR]
├─ net.maizegenetics.analysis.distance.KinshipPlugin.class - [JAR]
├─ net.maizegenetics.analysis.distance.MultiDimensionalScalingPlugin.class - [JAR]
├─ net.maizegenetics.analysis.distance.RemoveNaNFromDistanceMatrixPlugin.class - [JAR]
├─ net.maizegenetics.analysis.distance.SubtractDistanceMatrixPlugin.class - [JAR]
├─ net.maizegenetics.analysis.distance.VCAPScanPlugin.class - [JAR]
net.maizegenetics.dna.read
├─ net.maizegenetics.dna.read.FastqChunk.class - [JAR]
├─ net.maizegenetics.dna.read.PEFastqChunk.class - [JAR]
├─ net.maizegenetics.dna.read.PERead.class - [JAR]
├─ net.maizegenetics.dna.read.Read.class - [JAR]
├─ net.maizegenetics.dna.read.ReadUtils.class - [JAR]
net.maizegenetics.analysis.imputation
├─ net.maizegenetics.analysis.imputation.AGPMap.class - [JAR]
├─ net.maizegenetics.analysis.imputation.BackwardForwardAlgorithm.class - [JAR]
├─ net.maizegenetics.analysis.imputation.BackwardForwardVariableStateNumber.class - [JAR]
├─ net.maizegenetics.analysis.imputation.BiparentalHaplotypeFinder.class - [JAR]
├─ net.maizegenetics.analysis.imputation.CallParentAllelesPlugin.class - [JAR]
├─ net.maizegenetics.analysis.imputation.ClusterGenotypesPlugin.class - [JAR]
├─ net.maizegenetics.analysis.imputation.CrossProgenyEmissionMatrix.class - [JAR]
├─ net.maizegenetics.analysis.imputation.EmissionProbability.class - [JAR]
├─ net.maizegenetics.analysis.imputation.FILLINDonorGenotypeUtils.class - [JAR]
├─ net.maizegenetics.analysis.imputation.FILLINFindHaplotypesPlugin.class - [JAR]
├─ net.maizegenetics.analysis.imputation.FILLINImputationAccuracy.class - [JAR]
├─ net.maizegenetics.analysis.imputation.FILLINImputationPlugin.class - [JAR]
├─ net.maizegenetics.analysis.imputation.FILLINImputationUtils.class - [JAR]
├─ net.maizegenetics.analysis.imputation.FSFHapImputationPlugin.class - [JAR]
├─ net.maizegenetics.analysis.imputation.FindMergeHaplotypesPlugin.class - [JAR]
├─ net.maizegenetics.analysis.imputation.ImputationAccuracyPlugin.class - [JAR]
├─ net.maizegenetics.analysis.imputation.ImputationUtils.class - [JAR]
├─ net.maizegenetics.analysis.imputation.ImputeCrossProgeny.class - [JAR]
├─ net.maizegenetics.analysis.imputation.ImputeProgenyStatesPlugin.class - [JAR]
├─ net.maizegenetics.analysis.imputation.ImputedTaxon.class - [JAR]
├─ net.maizegenetics.analysis.imputation.LDKNNiImputationHetV2Plugin.class - [JAR]
├─ net.maizegenetics.analysis.imputation.LDKNNiImputationHetV3Plugin.class - [JAR]
├─ net.maizegenetics.analysis.imputation.LDKNNiImputationPlugin.class - [JAR]
├─ net.maizegenetics.analysis.imputation.MergeBreakpointFilesPlugin.class - [JAR]
├─ net.maizegenetics.analysis.imputation.NucleotideImputationUtils.class - [JAR]
├─ net.maizegenetics.analysis.imputation.ParentPhasingPlugin.class - [JAR]
├─ net.maizegenetics.analysis.imputation.PhaseHighCoverage.class - [JAR]
├─ net.maizegenetics.analysis.imputation.PopulationData.class - [JAR]
├─ net.maizegenetics.analysis.imputation.RandomGenotypeImputationPlugin.class - [JAR]
├─ net.maizegenetics.analysis.imputation.ReImputeUpdatedTaxaByFILLINPlugin.class - [JAR]
├─ net.maizegenetics.analysis.imputation.RemoveIndelsForBeaglePlugin.class - [JAR]
├─ net.maizegenetics.analysis.imputation.RephaseParents.class - [JAR]
├─ net.maizegenetics.analysis.imputation.SelfedHaplotypeFinder.class - [JAR]
├─ net.maizegenetics.analysis.imputation.SubpopulationFinder.class - [JAR]
├─ net.maizegenetics.analysis.imputation.TransitionProbability.class - [JAR]
├─ net.maizegenetics.analysis.imputation.TransitionProbabilityWithVariableRecombination.class - [JAR]
├─ net.maizegenetics.analysis.imputation.UseParentHaplotypes.class - [JAR]
├─ net.maizegenetics.analysis.imputation.ViterbiAlgorithm.class - [JAR]
├─ net.maizegenetics.analysis.imputation.ViterbiAlgorithmPlugin.class - [JAR]
├─ net.maizegenetics.analysis.imputation.ViterbiAlgorithmVariableStateNumber.class - [JAR]
├─ net.maizegenetics.analysis.imputation.WritePopulationAlignmentPlugin.class - [JAR]
net.maizegenetics.dna.snp.byte2d
├─ net.maizegenetics.dna.snp.byte2d.AbstractByte2D.class - [JAR]
├─ net.maizegenetics.dna.snp.byte2d.Byte2D.class - [JAR]
├─ net.maizegenetics.dna.snp.byte2d.Byte2DBuilder.class - [JAR]
├─ net.maizegenetics.dna.snp.byte2d.HDF5Byte2D.class - [JAR]
├─ net.maizegenetics.dna.snp.byte2d.MemoryByte2D.class - [JAR]
net.maizegenetics.analysis.association
├─ net.maizegenetics.analysis.association.AbstractFixedEffectLM.class - [JAR]
├─ net.maizegenetics.analysis.association.AlleleProbabilityFELM.class - [JAR]
├─ net.maizegenetics.analysis.association.AssociationConstants.class - [JAR]
├─ net.maizegenetics.analysis.association.AssociationUtils.class - [JAR]
├─ net.maizegenetics.analysis.association.BetaValue.class - [JAR]
├─ net.maizegenetics.analysis.association.CompressedDoubleMatrix.class - [JAR]
├─ net.maizegenetics.analysis.association.CompressedMLMusingDoubleMatrix.class - [JAR]
├─ net.maizegenetics.analysis.association.DiscreteSitesFELM.class - [JAR]
├─ net.maizegenetics.analysis.association.EqtlAssociationPlugin.class - [JAR]
├─ net.maizegenetics.analysis.association.FastMultithreadedAssociationPlugin.class - [JAR]
├─ net.maizegenetics.analysis.association.FixedEffectLM.class - [JAR]
├─ net.maizegenetics.analysis.association.FixedEffectLMPlugin.class - [JAR]
├─ net.maizegenetics.analysis.association.GenomicSelectionPlugin.class - [JAR]
├─ net.maizegenetics.analysis.association.MLMOptionDialog.class - [JAR]
├─ net.maizegenetics.analysis.association.MLMPlugin.class - [JAR]
├─ net.maizegenetics.analysis.association.ManovaTester.class - [JAR]
├─ net.maizegenetics.analysis.association.MultivariateStepwisePlugin.class - [JAR]
├─ net.maizegenetics.analysis.association.MultivariateStepwisePluginKt.class - [JAR]
├─ net.maizegenetics.analysis.association.PhenotypeLM.class - [JAR]
├─ net.maizegenetics.analysis.association.ReferenceProbabilityFELM.class - [JAR]
├─ net.maizegenetics.analysis.association.RegRidgeEmmaDoubleMatrix.class - [JAR]
├─ net.maizegenetics.analysis.association.RidgeRegressionEmmaPlugin.class - [JAR]
├─ net.maizegenetics.analysis.association.SnpData.class - [JAR]
├─ net.maizegenetics.analysis.association.WeightedMLMOptionDialog.class - [JAR]
├─ net.maizegenetics.analysis.association.WeightedMLMPlugin.class - [JAR]
net.maizegenetics.dna.pd
├─ net.maizegenetics.dna.pd.FolderParser.class - [JAR]
├─ net.maizegenetics.dna.pd.PDAnnotation.class - [JAR]
├─ net.maizegenetics.dna.pd.PDReport.class - [JAR]
├─ net.maizegenetics.dna.pd.SiteAnnotation.class - [JAR]
net.maizegenetics.dna.snp.bit
├─ net.maizegenetics.dna.snp.bit.BitStorage.class - [JAR]
├─ net.maizegenetics.dna.snp.bit.DynamicBitStorage.class - [JAR]
net.maizegenetics.gui
├─ net.maizegenetics.gui.AbstractAvailableListModel.class - [JAR]
├─ net.maizegenetics.gui.AbstractGenotypeTableMask.class - [JAR]
├─ net.maizegenetics.gui.AlignmentTableCellRenderer.class - [JAR]
├─ net.maizegenetics.gui.AlignmentTableModel.class - [JAR]
├─ net.maizegenetics.gui.DialogUtils.class - [JAR]
├─ net.maizegenetics.gui.FileBrowserUtils.class - [JAR]
├─ net.maizegenetics.gui.GenotypeTableMask.class - [JAR]
├─ net.maizegenetics.gui.GenotypeTableMaskBoolean.class - [JAR]
├─ net.maizegenetics.gui.GenotypeTableMaskGeneticDistance.class - [JAR]
├─ net.maizegenetics.gui.GenotypeTableMaskReference.class - [JAR]
├─ net.maizegenetics.gui.PrintHeapAction.class - [JAR]
├─ net.maizegenetics.gui.PrintTextArea.class - [JAR]
├─ net.maizegenetics.gui.ReportDestinationDialog.class - [JAR]
├─ net.maizegenetics.gui.RowHeaderRenderer.class - [JAR]
├─ net.maizegenetics.gui.SelectFromAvailableDialog.class - [JAR]
├─ net.maizegenetics.gui.SelectFromAvailableSitesDialog.class - [JAR]
├─ net.maizegenetics.gui.SiteNamesAvailableListModel.class - [JAR]
├─ net.maizegenetics.gui.TOPMGenotypeTableCellRenderer.class - [JAR]
├─ net.maizegenetics.gui.TableReportNoPagingTableModel.class - [JAR]
├─ net.maizegenetics.gui.TableRowHeaderListModel.class - [JAR]
├─ net.maizegenetics.gui.TaxaAvailableListModel.class - [JAR]
├─ net.maizegenetics.gui.VerticalLabelUI.class - [JAR]
net.maizegenetics.analysis.gbs.repgen
├─ net.maizegenetics.analysis.gbs.repgen.AlignmentInfo.class - [JAR]
├─ net.maizegenetics.analysis.gbs.repgen.RGBSProductionSNPCallerPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.repgen.RampSeqAlignFromBlastTags.class - [JAR]
├─ net.maizegenetics.analysis.gbs.repgen.RefTagData.class - [JAR]
├─ net.maizegenetics.analysis.gbs.repgen.RepGenAlignerPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.repgen.RepGenLDAnalysisPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.repgen.RepGenLoadSeqToDBPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.repgen.RepGenPhase2AlignerPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.repgen.TagCorrelationInfo.class - [JAR]
net.maizegenetics.analysis.modelfitter
├─ net.maizegenetics.analysis.modelfitter.AbstractAdditiveSite.class - [JAR]
├─ net.maizegenetics.analysis.modelfitter.AbstractForwardRegression.class - [JAR]
├─ net.maizegenetics.analysis.modelfitter.AddDomPermutationTestSpliterator.class - [JAR]
├─ net.maizegenetics.analysis.modelfitter.AddPlusDomModelEffect.class - [JAR]
├─ net.maizegenetics.analysis.modelfitter.AdditiveModelForwardRegression.class - [JAR]
├─ net.maizegenetics.analysis.modelfitter.AdditiveResidualForwardRegression.class - [JAR]
├─ net.maizegenetics.analysis.modelfitter.AdditiveSite.class - [JAR]
├─ net.maizegenetics.analysis.modelfitter.AdditiveSiteStorePlugin.class - [JAR]
├─ net.maizegenetics.analysis.modelfitter.CovariatePermutationTestSpliterator.class - [JAR]
├─ net.maizegenetics.analysis.modelfitter.ForwardRegression.class - [JAR]
├─ net.maizegenetics.analysis.modelfitter.ForwardStepAddDomSpliterator.class - [JAR]
├─ net.maizegenetics.analysis.modelfitter.ForwardStepAdditiveSpliterator.class - [JAR]
├─ net.maizegenetics.analysis.modelfitter.ForwardStepNestedAdditiveSpliterator.class - [JAR]
├─ net.maizegenetics.analysis.modelfitter.ForwardStepSubsettingAdditiveSpliterator.class - [JAR]
├─ net.maizegenetics.analysis.modelfitter.ForwardStepSubsettingNestedAdditiveSpliterator.class - [JAR]
├─ net.maizegenetics.analysis.modelfitter.GenotypeAdditiveSite.class - [JAR]
├─ net.maizegenetics.analysis.modelfitter.NestedCovariatePermutationTestSpliterator.class - [JAR]
├─ net.maizegenetics.analysis.modelfitter.RefProbAdditiveSite.class - [JAR]
├─ net.maizegenetics.analysis.modelfitter.ResamplingGWASPlugin.class - [JAR]
├─ net.maizegenetics.analysis.modelfitter.SNP.class - [JAR]
├─ net.maizegenetics.analysis.modelfitter.StepwiseAddDomModelFitter.class - [JAR]
├─ net.maizegenetics.analysis.modelfitter.StepwiseAdditiveModelFitter.class - [JAR]
├─ net.maizegenetics.analysis.modelfitter.StepwiseAdditiveModelFitterPlugin.class - [JAR]
├─ net.maizegenetics.analysis.modelfitter.StepwiseOLSModelFitter.class - [JAR]
├─ net.maizegenetics.analysis.modelfitter.StepwiseOLSModelFitterPlugin.class - [JAR]
net.maizegenetics.taxa.tree
├─ net.maizegenetics.taxa.tree.AttributeNode.class - [JAR]
├─ net.maizegenetics.taxa.tree.BranchLimits.class - [JAR]
├─ net.maizegenetics.taxa.tree.CladeSystem.class - [JAR]
├─ net.maizegenetics.taxa.tree.LabelMapping.class - [JAR]
├─ net.maizegenetics.taxa.tree.MultiParameterized.class - [JAR]
├─ net.maizegenetics.taxa.tree.NeighborJoiningTree.class - [JAR]
├─ net.maizegenetics.taxa.tree.NewickUtils.class - [JAR]
├─ net.maizegenetics.taxa.tree.Node.class - [JAR]
├─ net.maizegenetics.taxa.tree.NodeFactory.class - [JAR]
├─ net.maizegenetics.taxa.tree.NodeUtils.class - [JAR]
├─ net.maizegenetics.taxa.tree.Parameterized.class - [JAR]
├─ net.maizegenetics.taxa.tree.RootedTreeUtils.class - [JAR]
├─ net.maizegenetics.taxa.tree.SimpleNode.class - [JAR]
├─ net.maizegenetics.taxa.tree.SimpleTree.class - [JAR]
├─ net.maizegenetics.taxa.tree.SplitSystem.class - [JAR]
├─ net.maizegenetics.taxa.tree.SplitUtils.class - [JAR]
├─ net.maizegenetics.taxa.tree.Tree.class - [JAR]
├─ net.maizegenetics.taxa.tree.TreeClusters.class - [JAR]
├─ net.maizegenetics.taxa.tree.TreeParseException.class - [JAR]
├─ net.maizegenetics.taxa.tree.TreeUtils.class - [JAR]
├─ net.maizegenetics.taxa.tree.UPGMATree.class - [JAR]
├─ net.maizegenetics.taxa.tree.Units.class - [JAR]
├─ net.maizegenetics.taxa.tree.UnitsProvider.class - [JAR]
net.maizegenetics.dna.tag
├─ net.maizegenetics.dna.tag.AbstractPETags.class - [JAR]
├─ net.maizegenetics.dna.tag.AbstractTag.class - [JAR]
├─ net.maizegenetics.dna.tag.AbstractTags.class - [JAR]
├─ net.maizegenetics.dna.tag.AbstractTagsByTaxa.class - [JAR]
├─ net.maizegenetics.dna.tag.AbstractTagsHDF5.class - [JAR]
├─ net.maizegenetics.dna.tag.AbstractTaxaDistribution.class - [JAR]
├─ net.maizegenetics.dna.tag.FastqReader.class - [JAR]
├─ net.maizegenetics.dna.tag.GBSHDF5Constants.class - [JAR]
├─ net.maizegenetics.dna.tag.PETagCounts.class - [JAR]
├─ net.maizegenetics.dna.tag.PETags.class - [JAR]
├─ net.maizegenetics.dna.tag.Reads.class - [JAR]
├─ net.maizegenetics.dna.tag.ReadsByTaxa.class - [JAR]
├─ net.maizegenetics.dna.tag.RepGenData.class - [JAR]
├─ net.maizegenetics.dna.tag.RepGenDataWriter.class - [JAR]
├─ net.maizegenetics.dna.tag.RepGenSQLite.class - [JAR]
├─ net.maizegenetics.dna.tag.SAMUtils.class - [JAR]
├─ net.maizegenetics.dna.tag.Tag.class - [JAR]
├─ net.maizegenetics.dna.tag.Tag1Long.class - [JAR]
├─ net.maizegenetics.dna.tag.Tag2Long.class - [JAR]
├─ net.maizegenetics.dna.tag.Tag3Long.class - [JAR]
├─ net.maizegenetics.dna.tag.TagBuilder.class - [JAR]
├─ net.maizegenetics.dna.tag.TagCountMutable.class - [JAR]
├─ net.maizegenetics.dna.tag.TagCounts.class - [JAR]
├─ net.maizegenetics.dna.tag.TagData.class - [JAR]
├─ net.maizegenetics.dna.tag.TagDataSQLite.class - [JAR]
├─ net.maizegenetics.dna.tag.TagDataWriter.class - [JAR]
├─ net.maizegenetics.dna.tag.TagVarLong.class - [JAR]
├─ net.maizegenetics.dna.tag.Tags.class - [JAR]
├─ net.maizegenetics.dna.tag.TagsByTaxa.class - [JAR]
├─ net.maizegenetics.dna.tag.TagsByTaxaByte.class - [JAR]
├─ net.maizegenetics.dna.tag.TagsByTaxaByteFileMap.class - [JAR]
├─ net.maizegenetics.dna.tag.TagsByTaxaByteFileMapSeq.class - [JAR]
├─ net.maizegenetics.dna.tag.TagsByTaxaByteHDF5TagGroups.class - [JAR]
├─ net.maizegenetics.dna.tag.TagsByTaxaByteHDF5TaxaGroups.class - [JAR]
├─ net.maizegenetics.dna.tag.TagsByTaxaShort.class - [JAR]
├─ net.maizegenetics.dna.tag.TagsByTaxaUtils.class - [JAR]
├─ net.maizegenetics.dna.tag.TaxaDistBuilder.class - [JAR]
├─ net.maizegenetics.dna.tag.TaxaDistFixed.class - [JAR]
├─ net.maizegenetics.dna.tag.TaxaDistIntExpandable.class - [JAR]
├─ net.maizegenetics.dna.tag.TaxaDistShortExpandable.class - [JAR]
├─ net.maizegenetics.dna.tag.TaxaDistribution.class - [JAR]
├─ net.maizegenetics.dna.tag.UTagCountMutable.class - [JAR]
├─ net.maizegenetics.dna.tag.UTagPairs.class - [JAR]
net.maizegenetics.matrixalgebra.Matrix
├─ net.maizegenetics.matrixalgebra.Matrix.BlasDoubleMatrix.class - [JAR]
├─ net.maizegenetics.matrixalgebra.Matrix.ColtDoubleMatrix.class - [JAR]
├─ net.maizegenetics.matrixalgebra.Matrix.DoubleMatrix.class - [JAR]
├─ net.maizegenetics.matrixalgebra.Matrix.DoubleMatrixFactory.class - [JAR]
├─ net.maizegenetics.matrixalgebra.Matrix.EJMLDoubleMatrix.class - [JAR]
net.maizegenetics.dna.snp.genotypecall
├─ net.maizegenetics.dna.snp.genotypecall.AbstractGenotypeCallTable.class - [JAR]
├─ net.maizegenetics.dna.snp.genotypecall.AlleleFreqCache.class - [JAR]
├─ net.maizegenetics.dna.snp.genotypecall.BasicGenotypeMergeRule.class - [JAR]
├─ net.maizegenetics.dna.snp.genotypecall.ByteGenotypeCallTable.class - [JAR]
├─ net.maizegenetics.dna.snp.genotypecall.CombineGenotypeCallTable.class - [JAR]
├─ net.maizegenetics.dna.snp.genotypecall.DifferenceGenotypeCallTable.class - [JAR]
├─ net.maizegenetics.dna.snp.genotypecall.FilterGenotypeCallTable.class - [JAR]
├─ net.maizegenetics.dna.snp.genotypecall.GOBIIAvroGenotypeCallTable.class - [JAR]
├─ net.maizegenetics.dna.snp.genotypecall.GOBIIGenotypeCallTable.class - [JAR]
├─ net.maizegenetics.dna.snp.genotypecall.GenotypeCallTable.class - [JAR]
├─ net.maizegenetics.dna.snp.genotypecall.GenotypeCallTableBuilder.class - [JAR]
├─ net.maizegenetics.dna.snp.genotypecall.GenotypeMergeRule.class - [JAR]
├─ net.maizegenetics.dna.snp.genotypecall.HDF5ByteGenotypeCallTable.class - [JAR]
├─ net.maizegenetics.dna.snp.genotypecall.HighestDepthGenotypeMergeRule.class - [JAR]
├─ net.maizegenetics.dna.snp.genotypecall.HybridGenotypeCallTable.class - [JAR]
├─ net.maizegenetics.dna.snp.genotypecall.LineIndexHapmapGenotypeCallTable.class - [JAR]
├─ net.maizegenetics.dna.snp.genotypecall.ListStats.class - [JAR]
├─ net.maizegenetics.dna.snp.genotypecall.ListStatsFilterSite.class - [JAR]
├─ net.maizegenetics.dna.snp.genotypecall.ListStatsFilterTaxa.class - [JAR]
├─ net.maizegenetics.dna.snp.genotypecall.ListStatsSite.class - [JAR]
├─ net.maizegenetics.dna.snp.genotypecall.ListStatsTaxa.class - [JAR]
├─ net.maizegenetics.dna.snp.genotypecall.MaskGenotypeCallTable.class - [JAR]
├─ net.maizegenetics.dna.snp.genotypecall.MaskedGenotypes.class - [JAR]
├─ net.maizegenetics.dna.snp.genotypecall.MergedGenotypeCallTable.class - [JAR]
├─ net.maizegenetics.dna.snp.genotypecall.NucleotideGenotypeCallTable.class - [JAR]
├─ net.maizegenetics.dna.snp.genotypecall.ProjectionGenotypeCallTable.class - [JAR]
├─ net.maizegenetics.dna.snp.genotypecall.SetToNGenotypeMergeRule.class - [JAR]
├─ net.maizegenetics.dna.snp.genotypecall.Stats.class - [JAR]
net.maizegenetics.analysis.chart
├─ net.maizegenetics.analysis.chart.AbstractDisplayPlugin.class - [JAR]
├─ net.maizegenetics.analysis.chart.BarChartPanel.class - [JAR]
├─ net.maizegenetics.analysis.chart.BasicChartPanel.class - [JAR]
├─ net.maizegenetics.analysis.chart.BasicGraphFrame.class - [JAR]
├─ net.maizegenetics.analysis.chart.ChartDisplayPlugin.class - [JAR]
├─ net.maizegenetics.analysis.chart.HistogramPanel.class - [JAR]
├─ net.maizegenetics.analysis.chart.ManhattanDisplayPlugin.class - [JAR]
├─ net.maizegenetics.analysis.chart.ManhattanDisplayPluginDialog.class - [JAR]
├─ net.maizegenetics.analysis.chart.ManhattanNumberFormat.class - [JAR]
├─ net.maizegenetics.analysis.chart.PieChartPanel.class - [JAR]
├─ net.maizegenetics.analysis.chart.PlotOptionsDialog.class - [JAR]
├─ net.maizegenetics.analysis.chart.PlotOptionsQQDialog.class - [JAR]
├─ net.maizegenetics.analysis.chart.QQDisplayPlugin.class - [JAR]
├─ net.maizegenetics.analysis.chart.QQDisplayPluginDialog.class - [JAR]
├─ net.maizegenetics.analysis.chart.TableDisplayPlugin.class - [JAR]
├─ net.maizegenetics.analysis.chart.TablePluginDialog.class - [JAR]
├─ net.maizegenetics.analysis.chart.TableReportBoxWhiskerCatDataset.class - [JAR]
├─ net.maizegenetics.analysis.chart.TableReportManhattanDataset.class - [JAR]
├─ net.maizegenetics.analysis.chart.TableReportPieDataset.class - [JAR]
├─ net.maizegenetics.analysis.chart.TableReportQQDataset.class - [JAR]
├─ net.maizegenetics.analysis.chart.TableReportStatCategoryDataset.class - [JAR]
├─ net.maizegenetics.analysis.chart.TableReportXYDataset.class - [JAR]
├─ net.maizegenetics.analysis.chart.XYAndLineToolTipGenerator.class - [JAR]
├─ net.maizegenetics.analysis.chart.XYMultipleYToolTipGenerator.class - [JAR]
├─ net.maizegenetics.analysis.chart.XYScatterAndLinePanel.class - [JAR]
├─ net.maizegenetics.analysis.chart.XYScatterMultipleYPanel.class - [JAR]
├─ net.maizegenetics.analysis.chart.XYScatterPanel.class - [JAR]
net.maizegenetics.prefs
├─ net.maizegenetics.prefs.TasselPrefs.class - [JAR]
net.maizegenetics.stats.PCA
├─ net.maizegenetics.stats.PCA.ClassicMds.class - [JAR]
├─ net.maizegenetics.stats.PCA.PrinComp.class - [JAR]
net.maizegenetics.analysis.phg
├─ net.maizegenetics.analysis.phg.ParseGVCF.class - [JAR]
net.maizegenetics.analysis.gbs
├─ net.maizegenetics.analysis.gbs.AnnotateTOPM.class - [JAR]
├─ net.maizegenetics.analysis.gbs.AnnotateTOPMwSAMPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.Barcode.class - [JAR]
├─ net.maizegenetics.analysis.gbs.BinaryToTextPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.Clusters.class - [JAR]
├─ net.maizegenetics.analysis.gbs.CompareGenosBetweenHapMapFilesPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.ContigPETagCountPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.CustomSNPLog.class - [JAR]
├─ net.maizegenetics.analysis.gbs.CustomSNPLogRecord.class - [JAR]
├─ net.maizegenetics.analysis.gbs.DiscoverySNPCallerPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.FastqToPETagCountPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.FastqToTBTPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.FastqToTagCountPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.HelperTags.class - [JAR]
├─ net.maizegenetics.analysis.gbs.KeepSpecifiedReadsinFastqPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.KeepSpecifiedSitesInTOPMPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.KmerToTBTPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.KmerToTagCountPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.MergeDuplicateSNPsPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.MergeMultipleTOPMPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.MergeMultipleTagCountPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.MergePETagCountPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.MergeTagsByTaxaFilesByRowPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.MergeTagsByTaxaFilesPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.ModifyTBTHDF5Plugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.PEParseBarcodeRead.class - [JAR]
├─ net.maizegenetics.analysis.gbs.PEReadBarcodeResult.class - [JAR]
├─ net.maizegenetics.analysis.gbs.ParseBarcodeRead.class - [JAR]
├─ net.maizegenetics.analysis.gbs.PolymorphismFinder.class - [JAR]
├─ net.maizegenetics.analysis.gbs.ProductionPipeline.class - [JAR]
├─ net.maizegenetics.analysis.gbs.ProductionPipelineMain.class - [JAR]
├─ net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.QseqToPETagCountPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.QseqToTBTPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.QseqToTagCountPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.ReadBarcodeResult.class - [JAR]
├─ net.maizegenetics.analysis.gbs.SAMConverterPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.SAMWGMapConverterPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.SNPLogging.class - [JAR]
├─ net.maizegenetics.analysis.gbs.SeqToTBTHDF5Plugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.ShortReadBarcodeResult.class - [JAR]
├─ net.maizegenetics.analysis.gbs.SimpleGenotypeSBit.class - [JAR]
├─ net.maizegenetics.analysis.gbs.SmithWaterman.class - [JAR]
├─ net.maizegenetics.analysis.gbs.TOPMSummaryPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.TagAgainstAnchor.class - [JAR]
├─ net.maizegenetics.analysis.gbs.TagAgainstAnchorHypothesis.class - [JAR]
├─ net.maizegenetics.analysis.gbs.TagAgainstAnchorPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.TagBlockPosition.class - [JAR]
├─ net.maizegenetics.analysis.gbs.TagCountToFastqPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.TagLocusSiteQualityScores.class - [JAR]
├─ net.maizegenetics.analysis.gbs.TagMatchFinder.class - [JAR]
├─ net.maizegenetics.analysis.gbs.TerryPipelines.class - [JAR]
├─ net.maizegenetics.analysis.gbs.TextToBinaryPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.UNetworkFilter.class - [JAR]
├─ net.maizegenetics.analysis.gbs.UTagCountToTagPairPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.UTagPairFinder.class - [JAR]
├─ net.maizegenetics.analysis.gbs.UTagPairToTOPMPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.cluster.class - [JAR]
net.maizegenetics.analysis.avro
├─ net.maizegenetics.analysis.avro.AvroConstants.class - [JAR]
├─ net.maizegenetics.analysis.avro.ExportAvro.class - [JAR]
├─ net.maizegenetics.analysis.avro.GenericArrayPositions.class - [JAR]
├─ net.maizegenetics.analysis.avro.GenericArrayTaxa.class - [JAR]
├─ net.maizegenetics.analysis.avro.GenericMapAnnotations.class - [JAR]
├─ net.maizegenetics.analysis.avro.GenericRecordChromosome.class - [JAR]
├─ net.maizegenetics.analysis.avro.GenericRecordGenotype.class - [JAR]
├─ net.maizegenetics.analysis.avro.GenericRecordGenotypeTable.class - [JAR]
├─ net.maizegenetics.analysis.avro.GenericRecordPosition.class - [JAR]
├─ net.maizegenetics.analysis.avro.GenericRecordTaxon.class - [JAR]
├─ net.maizegenetics.analysis.avro.ImportAvro.class - [JAR]
net.maizegenetics.analysis.workflow
├─ net.maizegenetics.analysis.workflow.WorkflowPlugin.class - [JAR]
net.maizegenetics.analysis.tree
├─ net.maizegenetics.analysis.tree.ArchaeopteryxPlugin.class - [JAR]
├─ net.maizegenetics.analysis.tree.ConvertTreeNamesPlugin.class - [JAR]
├─ net.maizegenetics.analysis.tree.ConvertTreeNamesPluginKt.class - [JAR]
├─ net.maizegenetics.analysis.tree.CreateTreePlugin.class - [JAR]
├─ net.maizegenetics.analysis.tree.MergeTreesPlugin.class - [JAR]
├─ net.maizegenetics.analysis.tree.MergeTreesPluginKt.class - [JAR]
├─ net.maizegenetics.analysis.tree.RemoveBranchLengthsPlugin.class - [JAR]
├─ net.maizegenetics.analysis.tree.RemoveBranchLengthsPluginKt.class - [JAR]
├─ net.maizegenetics.analysis.tree.SubsetTreePlugin.class - [JAR]
├─ net.maizegenetics.analysis.tree.SubsetTreePluginKt.class - [JAR]
net.maizegenetics.phenotype
├─ net.maizegenetics.phenotype.CategoricalAttribute.class - [JAR]
├─ net.maizegenetics.phenotype.CorePhenotype.class - [JAR]
├─ net.maizegenetics.phenotype.FilterPhenotype.class - [JAR]
├─ net.maizegenetics.phenotype.GenotypePhenotype.class - [JAR]
├─ net.maizegenetics.phenotype.GenotypePhenotypeBuilder.class - [JAR]
├─ net.maizegenetics.phenotype.NumericAttribute.class - [JAR]
├─ net.maizegenetics.phenotype.Phenotype.class - [JAR]
├─ net.maizegenetics.phenotype.PhenotypeAttribute.class - [JAR]
├─ net.maizegenetics.phenotype.PhenotypeBuilder.class - [JAR]
├─ net.maizegenetics.phenotype.PhenotypeUtils.class - [JAR]
├─ net.maizegenetics.phenotype.TaxaAttribute.class - [JAR]
net.maizegenetics.analysis.data
├─ net.maizegenetics.analysis.data.AddReferenceAlleleToHDF5Plugin.class - [JAR]
├─ net.maizegenetics.analysis.data.AddReferenceToGenotypePlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.AdjustPhasingPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.BuildUnfinishedHDF5GenotypesPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.CombineDataSetsPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.ConvertAlignmentCoordinatesPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.CountAssociationsPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.CountAssociationsPluginKt.class - [JAR]
├─ net.maizegenetics.analysis.data.CreateHybridGenotypesPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.ExportMultiplePlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.ExportPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.ExtractHapmapSubsetPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.FeatureListToPositionsPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.FileLoadPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.FindInversionsPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.GenomeAnnosDBQueryToPositionListPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.GenosToABHPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.GenotypeSummaryPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.GenotypeToAdditiveValuesPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.GetPositionListPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.GetTaxaListPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.HDF5SummaryPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.HetsToUnknownPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.IdentityRecognitionPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.IndelsToUnknownPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.IntersectionAlignmentPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.KmerCountingPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.KmerCountingPluginKt.class - [JAR]
├─ net.maizegenetics.analysis.data.LIXPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.LowLevelCopyOfHDF5.class - [JAR]
├─ net.maizegenetics.analysis.data.MaskGenotypePlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.MeanR2FromLDPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.MemoryUsagePlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.MergeAlignmentsSameSitesPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.MergeGenotypeTablesPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.MergeGenotypeTablesPluginV2.class - [JAR]
├─ net.maizegenetics.analysis.data.MergeHDF5GenotypesSameSitesPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.MergeRenameDeleteTaxaPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.MigrateHDF5FromT4T5.class - [JAR]
├─ net.maizegenetics.analysis.data.PassThroughPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.PlinkLoadPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.PrincipalComponentsPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.ProjectPcsAndRunModelSelectionPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.ProjectionLoadPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.SeparatePlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.SetLowDepthGenosToMissingPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.SortGenotypeFilePlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.SortTaxaAlphabeticallyPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.SplitHDF5ByChromosomePlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.SubtractGenotypesPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.SynMenuDialog.class - [JAR]
├─ net.maizegenetics.analysis.data.SynonymizerDialog.class - [JAR]
├─ net.maizegenetics.analysis.data.SynonymizerFileChooser.class - [JAR]
├─ net.maizegenetics.analysis.data.SynonymizerPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.ThinSitesByPositionPlugin.class - [JAR]
├─ net.maizegenetics.analysis.data.UnionAlignmentPlugin.class - [JAR]
net.maizegenetics.analysis.b4r
├─ net.maizegenetics.analysis.b4r.B4RPhenotypeUtils.class - [JAR]
├─ net.maizegenetics.analysis.b4r.GetPhenotypeFromB4RPlugin.class - [JAR]
net.maizegenetics.analysis.monetdb
├─ net.maizegenetics.analysis.monetdb.ColumnsToBinaryFullGenomeTablePlugin.class - [JAR]
├─ net.maizegenetics.analysis.monetdb.ColumnsToBinarySNPOnlyTablePlugin.class - [JAR]
├─ net.maizegenetics.analysis.monetdb.ColumnsToBinaryUtils.class - [JAR]
├─ net.maizegenetics.analysis.monetdb.LittleEndianDataOutputStream.class - [JAR]
net.maizegenetics.analysis
├─ net.maizegenetics.analysis.ListPluginParameters.class - [JAR]
├─ net.maizegenetics.analysis.ListPluginParametersKt.class - [JAR]
├─ net.maizegenetics.analysis.ListPlugins.class - [JAR]
net.maizegenetics.analysis.rna
├─ net.maizegenetics.analysis.rna.FindMatchByWordHash.class - [JAR]
├─ net.maizegenetics.analysis.rna.LoadRNAContigsToGBSDBPlugin.class - [JAR]
├─ net.maizegenetics.analysis.rna.RNADeMultiPlexSeqToDBPlugin.class - [JAR]
├─ net.maizegenetics.analysis.rna.RNADeMultiplexProductionPlugin.class - [JAR]
net.maizegenetics.util.db
├─ net.maizegenetics.util.db.DBTuple.class - [JAR]
├─ net.maizegenetics.util.db.DataAccessException.class - [JAR]
├─ net.maizegenetics.util.db.DefaultDBTuple.class - [JAR]
├─ net.maizegenetics.util.db.LambdaTuplesContext.class - [JAR]
├─ net.maizegenetics.util.db.Pair.class - [JAR]
├─ net.maizegenetics.util.db.ResultSetIterator.class - [JAR]
├─ net.maizegenetics.util.db.ResultSetProcessor.class - [JAR]
├─ net.maizegenetics.util.db.SQL.class - [JAR]
├─ net.maizegenetics.util.db.SQLAction.class - [JAR]
├─ net.maizegenetics.util.db.Transformations.class - [JAR]
├─ net.maizegenetics.util.db.TransformerService.class - [JAR]
├─ net.maizegenetics.util.db.TypeTransformer.class - [JAR]
net.maizegenetics.analysis.numericaltransform
├─ net.maizegenetics.analysis.numericaltransform.AvgPhenotype.class - [JAR]
├─ net.maizegenetics.analysis.numericaltransform.AvgPhenotypeByTaxaPlugin.class - [JAR]
├─ net.maizegenetics.analysis.numericaltransform.BoxCoxTransformation.class - [JAR]
├─ net.maizegenetics.analysis.numericaltransform.BoxCoxTransformationPlugin.class - [JAR]
├─ net.maizegenetics.analysis.numericaltransform.ImputationByMean.class - [JAR]
├─ net.maizegenetics.analysis.numericaltransform.ImputationPlugin.class - [JAR]
├─ net.maizegenetics.analysis.numericaltransform.NumericalGenotypePlugin.class - [JAR]
├─ net.maizegenetics.analysis.numericaltransform.SubtractPhenotype.class - [JAR]
├─ net.maizegenetics.analysis.numericaltransform.SubtractPhenotypeByTaxaPlugin.class - [JAR]
├─ net.maizegenetics.analysis.numericaltransform.TransformDataDialog.class - [JAR]
├─ net.maizegenetics.analysis.numericaltransform.TransformDataPlugin.class - [JAR]
├─ net.maizegenetics.analysis.numericaltransform.kNearestNeighbors.class - [JAR]
net.maizegenetics.dna.snp
├─ net.maizegenetics.dna.snp.AbstractMaskMatrix.class - [JAR]
├─ net.maizegenetics.dna.snp.Allele.class - [JAR]
├─ net.maizegenetics.dna.snp.CombineGenotypeTable.class - [JAR]
├─ net.maizegenetics.dna.snp.CoreGenotypeTable.class - [JAR]
├─ net.maizegenetics.dna.snp.ExportUtils.class - [JAR]
├─ net.maizegenetics.dna.snp.Filter.class - [JAR]
├─ net.maizegenetics.dna.snp.FilterAndMaskGVCFGenomeSequence.class - [JAR]
├─ net.maizegenetics.dna.snp.FilterGenotypeTable.class - [JAR]
├─ net.maizegenetics.dna.snp.FilterList.class - [JAR]
├─ net.maizegenetics.dna.snp.FilterSite.class - [JAR]
├─ net.maizegenetics.dna.snp.FilterTableReport.class - [JAR]
├─ net.maizegenetics.dna.snp.FilterTaxa.class - [JAR]
├─ net.maizegenetics.dna.snp.GenotypeTable.class - [JAR]
├─ net.maizegenetics.dna.snp.GenotypeTableBuilder.class - [JAR]
├─ net.maizegenetics.dna.snp.GenotypeTableUtils.class - [JAR]
├─ net.maizegenetics.dna.snp.HapMapHDF5Constants.class - [JAR]
├─ net.maizegenetics.dna.snp.ImportUtils.class - [JAR]
├─ net.maizegenetics.dna.snp.MaskGenotypeMatrix.class - [JAR]
├─ net.maizegenetics.dna.snp.MaskGenotypeStatsMatrix.class - [JAR]
├─ net.maizegenetics.dna.snp.MaskMatrix.class - [JAR]
├─ net.maizegenetics.dna.snp.MaskMatrixBuilder.class - [JAR]
├─ net.maizegenetics.dna.snp.MaskSiteMatrix.class - [JAR]
├─ net.maizegenetics.dna.snp.MaskTaxaMatrix.class - [JAR]
├─ net.maizegenetics.dna.snp.MergedGenotypeTable.class - [JAR]
├─ net.maizegenetics.dna.snp.NucleotideAlignmentConstants.class - [JAR]
├─ net.maizegenetics.dna.snp.ProjectionBuilder.class - [JAR]
├─ net.maizegenetics.dna.snp.ReadSequenceAlignmentUtils.class - [JAR]
├─ net.maizegenetics.dna.snp.SimpleAllele.class - [JAR]
├─ net.maizegenetics.dna.snp.TOPMGenotypeTable.class - [JAR]
├─ net.maizegenetics.dna.snp.Translate.class - [JAR]
├─ net.maizegenetics.dna.snp.TranslateBuilder.class - [JAR]
├─ net.maizegenetics.dna.snp.TranslateIndex.class - [JAR]
├─ net.maizegenetics.dna.snp.TranslateIndexBuilder.class - [JAR]
├─ net.maizegenetics.dna.snp.TranslateIndexRange.class - [JAR]
├─ net.maizegenetics.dna.snp.TranslateIndexRedirect.class - [JAR]
├─ net.maizegenetics.dna.snp.TranslateIndexRedirectUnordered.class - [JAR]
├─ net.maizegenetics.dna.snp.TranslateNegative.class - [JAR]
net.maizegenetics.analysis.gbs.v2
├─ net.maizegenetics.analysis.gbs.v2.BarcodeTrie.class - [JAR]
├─ net.maizegenetics.analysis.gbs.v2.DiscoverySNPCallerPluginV2.class - [JAR]
├─ net.maizegenetics.analysis.gbs.v2.EnzymeList.class - [JAR]
├─ net.maizegenetics.analysis.gbs.v2.GBSEnzyme.class - [JAR]
├─ net.maizegenetics.analysis.gbs.v2.GBSSeqToTagDBPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.v2.GBSUtils.class - [JAR]
├─ net.maizegenetics.analysis.gbs.v2.GetTagSequenceFromDBPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.v2.GetTagTaxaDistFromDBPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.v2.ProductionSNPCallerPluginV2.class - [JAR]
├─ net.maizegenetics.analysis.gbs.v2.SAMToGBSdbPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.v2.SNPCutPosTagVerificationPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.v2.SNPQualityProfilerPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.v2.TagExportToFastqPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gbs.v2.TagTaxaDistribution.class - [JAR]
├─ net.maizegenetics.analysis.gbs.v2.UpdateSNPPositionQualityPlugin.class - [JAR]
net.maizegenetics.analysis.gobii
├─ net.maizegenetics.analysis.gobii.BMSConnection.class - [JAR]
├─ net.maizegenetics.analysis.gobii.GOBIIDbUtils.class - [JAR]
├─ net.maizegenetics.analysis.gobii.GOBIIPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gobii.GOBIIPostgresConnection.class - [JAR]
├─ net.maizegenetics.analysis.gobii.GOBII_IFLUtils.class - [JAR]
├─ net.maizegenetics.analysis.gobii.GWAS_IFLPlugin.class - [JAR]
├─ net.maizegenetics.analysis.gobii.HapBreakpoints_IFLFilePlugin.class - [JAR]
├─ net.maizegenetics.analysis.gobii.MarkerDNARun_IFLFilePlugin.class - [JAR]
├─ net.maizegenetics.analysis.gobii.MonetDB_IFLFilePlugin.class - [JAR]
├─ net.maizegenetics.analysis.gobii.PreProcessGOBIIMappingFilePlugin.class - [JAR]
├─ net.maizegenetics.analysis.gobii.SplitFile_IFLFilePlugin.class - [JAR]
├─ net.maizegenetics.analysis.gobii.UpdateMarkerAndDNA_idxes.class - [JAR]
net.maizegenetics.taxa
├─ net.maizegenetics.taxa.IdentifierSynonymizer.class - [JAR]
├─ net.maizegenetics.taxa.TaxaArrayList.class - [JAR]
├─ net.maizegenetics.taxa.TaxaList.class - [JAR]
├─ net.maizegenetics.taxa.TaxaListBuilder.class - [JAR]
├─ net.maizegenetics.taxa.TaxaListIOUtils.class - [JAR]
├─ net.maizegenetics.taxa.TaxaListTableReport.class - [JAR]
├─ net.maizegenetics.taxa.TaxaListUtils.class - [JAR]
├─ net.maizegenetics.taxa.TaxaNoIndexList.class - [JAR]
├─ net.maizegenetics.taxa.TaxaTissueDist.class - [JAR]
├─ net.maizegenetics.taxa.Taxon.class - [JAR]
net.maizegenetics.dna.map
├─ net.maizegenetics.dna.map.AbstractPETagsOnPhysicalMap.class - [JAR]
├─ net.maizegenetics.dna.map.AbstractTagsOnPhysicalMap.class - [JAR]
├─ net.maizegenetics.dna.map.Chromosome.class - [JAR]
├─ net.maizegenetics.dna.map.DonorHaplotypes.class - [JAR]
├─ net.maizegenetics.dna.map.GVCFGenomeSequence.class - [JAR]
├─ net.maizegenetics.dna.map.GVCFGenomeSequenceBuilder.class - [JAR]
├─ net.maizegenetics.dna.map.GVCFPositionRecord.class - [JAR]
├─ net.maizegenetics.dna.map.GVCFRecord.class - [JAR]
├─ net.maizegenetics.dna.map.GeneralPosition.class - [JAR]
├─ net.maizegenetics.dna.map.GenomeFeature.class - [JAR]
├─ net.maizegenetics.dna.map.GenomeFeatureBuilder.class - [JAR]
├─ net.maizegenetics.dna.map.GenomeFeatureMap.class - [JAR]
├─ net.maizegenetics.dna.map.GenomeFeatureMapBuilder.class - [JAR]
├─ net.maizegenetics.dna.map.GenomeSequence.class - [JAR]
├─ net.maizegenetics.dna.map.GenomeSequenceBuilder.class - [JAR]
├─ net.maizegenetics.dna.map.HalfByteGenomeSequence.class - [JAR]
├─ net.maizegenetics.dna.map.HalfByteGenomeSequenceGVCF.class - [JAR]
├─ net.maizegenetics.dna.map.HeaderPositions.class - [JAR]
├─ net.maizegenetics.dna.map.PETagsOnPhysicalMap.class - [JAR]
├─ net.maizegenetics.dna.map.PETagsOnPhysicalMapV3.class - [JAR]
├─ net.maizegenetics.dna.map.Position.class - [JAR]
├─ net.maizegenetics.dna.map.PositionArrayList.class - [JAR]
├─ net.maizegenetics.dna.map.PositionHDF5List.class - [JAR]
├─ net.maizegenetics.dna.map.PositionList.class - [JAR]
├─ net.maizegenetics.dna.map.PositionListBuilder.class - [JAR]
├─ net.maizegenetics.dna.map.PositionListIOUtils.class - [JAR]
├─ net.maizegenetics.dna.map.PositionListTableReport.class - [JAR]
├─ net.maizegenetics.dna.map.SingleTagByTaxa.class - [JAR]
├─ net.maizegenetics.dna.map.TOPMInterface.class - [JAR]
├─ net.maizegenetics.dna.map.TOPMTableReport.class - [JAR]
├─ net.maizegenetics.dna.map.TOPMUtils.class - [JAR]
├─ net.maizegenetics.dna.map.TagGWASMap.class - [JAR]
├─ net.maizegenetics.dna.map.TagGWASMapInfo.class - [JAR]
├─ net.maizegenetics.dna.map.TagGeneticMappingInfo.class - [JAR]
├─ net.maizegenetics.dna.map.TagLocus.class - [JAR]
├─ net.maizegenetics.dna.map.TagMappingInfo.class - [JAR]
├─ net.maizegenetics.dna.map.TagMappingInfoV3.class - [JAR]
├─ net.maizegenetics.dna.map.TagsOnGeneticMap.class - [JAR]
├─ net.maizegenetics.dna.map.TagsOnPhysMapHDF5.class - [JAR]
├─ net.maizegenetics.dna.map.TagsOnPhysicalMap.class - [JAR]
├─ net.maizegenetics.dna.map.TagsOnPhysicalMapV3.class - [JAR]
├─ net.maizegenetics.dna.map.UpdateTOPMWithGeneticMapping.class - [JAR]
net.maizegenetics.stats.EMMA
├─ net.maizegenetics.stats.EMMA.EMMAforDoubleMatrix.class - [JAR]
net.maizegenetics.util
├─ net.maizegenetics.util.AbstractTableReport.class - [JAR]
├─ net.maizegenetics.util.ArgsEngine.class - [JAR]
├─ net.maizegenetics.util.BasicFileFilter.class - [JAR]
├─ net.maizegenetics.util.BitSet.class - [JAR]
├─ net.maizegenetics.util.BitUtil.class - [JAR]
├─ net.maizegenetics.util.BuilderFromVCFUtil.class - [JAR]
├─ net.maizegenetics.util.ChangeLog.class - [JAR]
├─ net.maizegenetics.util.CheckSum.class - [JAR]
├─ net.maizegenetics.util.ColumnMatrix.class - [JAR]
├─ net.maizegenetics.util.ConvertOldFastqToModernFormatPlugin.class - [JAR]
├─ net.maizegenetics.util.DirectedGraph.class - [JAR]
├─ net.maizegenetics.util.DirectoryCrawler.class - [JAR]
├─ net.maizegenetics.util.DoubleFormat.class - [JAR]
├─ net.maizegenetics.util.ExceptionUtils.class - [JAR]
├─ net.maizegenetics.util.FormattedInput.class - [JAR]
├─ net.maizegenetics.util.FormattedOutput.class - [JAR]
├─ net.maizegenetics.util.GeneralAnnotation.class - [JAR]
├─ net.maizegenetics.util.GeneralAnnotationStorage.class - [JAR]
├─ net.maizegenetics.util.Graph.class - [JAR]
├─ net.maizegenetics.util.GraphBuilder.class - [JAR]
├─ net.maizegenetics.util.GraphUtils.class - [JAR]
├─ net.maizegenetics.util.HDF5TableReport.class - [JAR]
├─ net.maizegenetics.util.HDF5Utils.class - [JAR]
├─ net.maizegenetics.util.InputSource.class - [JAR]
├─ net.maizegenetics.util.LoggingUtils.class - [JAR]
├─ net.maizegenetics.util.MultiMemberGZIPInputStream.class - [JAR]
├─ net.maizegenetics.util.OpenBitSet.class - [JAR]
├─ net.maizegenetics.util.ProgressListener.class - [JAR]
├─ net.maizegenetics.util.SMTPClient.class - [JAR]
├─ net.maizegenetics.util.SimpleTableReport.class - [JAR]
├─ net.maizegenetics.util.Sizeof.class - [JAR]
├─ net.maizegenetics.util.StringNumberComparator.class - [JAR]
├─ net.maizegenetics.util.SuperByteMatrix.class - [JAR]
├─ net.maizegenetics.util.SuperByteMatrixBuilder.class - [JAR]
├─ net.maizegenetics.util.SuperByteMatrixMultiple.class - [JAR]
├─ net.maizegenetics.util.SuperByteMatrixSingle.class - [JAR]
├─ net.maizegenetics.util.SuperByteMatrixSingleValue.class - [JAR]
├─ net.maizegenetics.util.SuperByteMatrixTranspose.class - [JAR]
├─ net.maizegenetics.util.TableReport.class - [JAR]
├─ net.maizegenetics.util.TableReportBuilder.class - [JAR]
├─ net.maizegenetics.util.TableReportUtils.class - [JAR]
├─ net.maizegenetics.util.Tassel5HDF5Constants.class - [JAR]
├─ net.maizegenetics.util.Tuple.class - [JAR]
├─ net.maizegenetics.util.UndirectedGraph.class - [JAR]
├─ net.maizegenetics.util.UnmodifiableBitSet.class - [JAR]
├─ net.maizegenetics.util.Utils.class - [JAR]
net.maizegenetics.dna.snp.io
├─ net.maizegenetics.dna.snp.io.BuilderFromGVCF.class - [JAR]
├─ net.maizegenetics.dna.snp.io.BuilderFromGenotypeHDF5.class - [JAR]
├─ net.maizegenetics.dna.snp.io.BuilderFromHapMap.class - [JAR]
├─ net.maizegenetics.dna.snp.io.BuilderFromHapMapLIX.class - [JAR]
├─ net.maizegenetics.dna.snp.io.BuilderFromPLINK.class - [JAR]
├─ net.maizegenetics.dna.snp.io.BuilderFromVCF.class - [JAR]
├─ net.maizegenetics.dna.snp.io.BuilderFromVCFUsingHTSJDK.class - [JAR]
├─ net.maizegenetics.dna.snp.io.FilterJSONUtils.class - [JAR]
├─ net.maizegenetics.dna.snp.io.FlapjackUtils.class - [JAR]
├─ net.maizegenetics.dna.snp.io.HeaderPositions.class - [JAR]
├─ net.maizegenetics.dna.snp.io.JSONUtils.class - [JAR]
├─ net.maizegenetics.dna.snp.io.LineIndex.class - [JAR]
├─ net.maizegenetics.dna.snp.io.LineIndexBuilder.class - [JAR]
├─ net.maizegenetics.dna.snp.io.ProcessVCFBlock.class - [JAR]
├─ net.maizegenetics.dna.snp.io.ProjectionGenotypeIO.class - [JAR]
├─ net.maizegenetics.dna.snp.io.ReadBedfile.class - [JAR]
├─ net.maizegenetics.dna.snp.io.ReadNumericMarkerUtils.class - [JAR]
├─ net.maizegenetics.dna.snp.io.SiteScoresIO.class - [JAR]
├─ net.maizegenetics.dna.snp.io.VCFUtil.class - [JAR]
net.maizegenetics.plugindef
├─ net.maizegenetics.plugindef.AbstractPlugin.class - [JAR]
├─ net.maizegenetics.plugindef.AbstractPluginAction.class - [JAR]
├─ net.maizegenetics.plugindef.DataSet.class - [JAR]
├─ net.maizegenetics.plugindef.Datum.class - [JAR]
├─ net.maizegenetics.plugindef.DefaultPluginListener.class - [JAR]
├─ net.maizegenetics.plugindef.GeneratePluginCode.class - [JAR]
├─ net.maizegenetics.plugindef.GenerateRCode.class - [JAR]
├─ net.maizegenetics.plugindef.ParameterCache.class - [JAR]
├─ net.maizegenetics.plugindef.Plugin.class - [JAR]
├─ net.maizegenetics.plugindef.PluginAction.class - [JAR]
├─ net.maizegenetics.plugindef.PluginEvent.class - [JAR]
├─ net.maizegenetics.plugindef.PluginListener.class - [JAR]
├─ net.maizegenetics.plugindef.PluginParameter.class - [JAR]
├─ net.maizegenetics.plugindef.ThreadedPluginListener.class - [JAR]
net.maizegenetics.dna.snp.score
├─ net.maizegenetics.dna.snp.score.AlleleDepth.class - [JAR]
├─ net.maizegenetics.dna.snp.score.AlleleDepthBuilder.class - [JAR]
├─ net.maizegenetics.dna.snp.score.AlleleDepthUtil.class - [JAR]
├─ net.maizegenetics.dna.snp.score.AlleleProbability.class - [JAR]
├─ net.maizegenetics.dna.snp.score.AlleleProbabilityBuilder.class - [JAR]
├─ net.maizegenetics.dna.snp.score.Dosage.class - [JAR]
├─ net.maizegenetics.dna.snp.score.DosageBuilder.class - [JAR]
├─ net.maizegenetics.dna.snp.score.FilterAlleleDepth.class - [JAR]
├─ net.maizegenetics.dna.snp.score.FilterAlleleProbability.class - [JAR]
├─ net.maizegenetics.dna.snp.score.FilterDosage.class - [JAR]
├─ net.maizegenetics.dna.snp.score.FilterHDF5AlleleDepth.class - [JAR]
├─ net.maizegenetics.dna.snp.score.FilterReferenceProbability.class - [JAR]
├─ net.maizegenetics.dna.snp.score.HDF5AlleleDepth.class - [JAR]
├─ net.maizegenetics.dna.snp.score.HDF5AlleleDepthBuilder.class - [JAR]
├─ net.maizegenetics.dna.snp.score.MaskAlleleDepth.class - [JAR]
├─ net.maizegenetics.dna.snp.score.MaskAlleleProbability.class - [JAR]
├─ net.maizegenetics.dna.snp.score.MaskDosage.class - [JAR]
├─ net.maizegenetics.dna.snp.score.MaskReferenceProbability.class - [JAR]
├─ net.maizegenetics.dna.snp.score.ReferenceProbability.class - [JAR]
├─ net.maizegenetics.dna.snp.score.ReferenceProbabilityBuilder.class - [JAR]
├─ net.maizegenetics.dna.snp.score.SiteScore.class - [JAR]
├─ net.maizegenetics.dna.snp.score.SiteScoreUtil.class - [JAR]
net.maizegenetics.analysis.filter
├─ net.maizegenetics.analysis.filter.FilterAlignmentPlugin.class - [JAR]
├─ net.maizegenetics.analysis.filter.FilterBySites.class - [JAR]
├─ net.maizegenetics.analysis.filter.FilterByTaxa.class - [JAR]
├─ net.maizegenetics.analysis.filter.FilterDataSetPlugin.class - [JAR]
├─ net.maizegenetics.analysis.filter.FilterSiteBuilderPlugin.class - [JAR]
├─ net.maizegenetics.analysis.filter.FilterSiteNamePlugin.class - [JAR]
├─ net.maizegenetics.analysis.filter.FilterSubsetPlugin.class - [JAR]
├─ net.maizegenetics.analysis.filter.FilterTaxaBuilderPlugin.class - [JAR]
├─ net.maizegenetics.analysis.filter.FilterTaxaPropertiesPlugin.class - [JAR]
├─ net.maizegenetics.analysis.filter.FilterTraitsDialog.class - [JAR]
├─ net.maizegenetics.analysis.filter.FilterTraitsPlugin.class - [JAR]
├─ net.maizegenetics.analysis.filter.TraitTableModel.class - [JAR]
