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TASSEL is a software package to evaluate traits associations, evolutionary patterns, and linkage disequilibrium.

Files of the artifact tassel version 5.2.75 from the group net.maizegenetics.

Artifact tassel
Group net.maizegenetics
Version 5.2.75
Last update 04. October 2021
Tags: evaluate software patterns disequilibrium evolutionary package associations linkage tassel traits
Organization not specified
URL http://www.maizegenetics.net/tassel
License GNU Lesser General Public License, version 2.1
Dependencies amount 26
Dependencies log4j, guava, commons-math3, commons-codec, biojava-core, biojava-alignment, biojava-phylo, jfreechart, jfreesvg, trove4j, ejml-ddense, snappy-java, mail, json-simple, javax.json, sqlite-jdbc, htsjdk, ahocorasick, postgresql, avro, colt, forester, jhdf5, kotlin-stdlib-jdk8, ini4j, fastutil,
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Source code of tassel version 5.2.75

META-INF
META-INF.META-INF.MANIFEST.MF
net.maizegenetics.analysis
net.maizegenetics.analysis.net.maizegenetics.analysis.ListPluginParameters.kt
net.maizegenetics.analysis.net.maizegenetics.analysis.ListPlugins
net.maizegenetics.analysis.association
net.maizegenetics.analysis.association.net.maizegenetics.analysis.association.AbstractFixedEffectLM
net.maizegenetics.analysis.association.net.maizegenetics.analysis.association.AlleleProbabilityFELM
net.maizegenetics.analysis.association.net.maizegenetics.analysis.association.AssociationConstants
net.maizegenetics.analysis.association.net.maizegenetics.analysis.association.AssociationUtils
net.maizegenetics.analysis.association.net.maizegenetics.analysis.association.CompressedDoubleMatrix
net.maizegenetics.analysis.association.net.maizegenetics.analysis.association.CompressedMLMusingDoubleMatrix
net.maizegenetics.analysis.association.net.maizegenetics.analysis.association.DiscreteSitesFELM
net.maizegenetics.analysis.association.net.maizegenetics.analysis.association.EqtlAssociationPlugin
net.maizegenetics.analysis.association.net.maizegenetics.analysis.association.FastMultithreadedAssociationPlugin
net.maizegenetics.analysis.association.net.maizegenetics.analysis.association.FixedEffectLM
net.maizegenetics.analysis.association.net.maizegenetics.analysis.association.FixedEffectLMPlugin
net.maizegenetics.analysis.association.net.maizegenetics.analysis.association.GenomicSelectionPlugin
net.maizegenetics.analysis.association.net.maizegenetics.analysis.association.MLMPlugin
net.maizegenetics.analysis.association.net.maizegenetics.analysis.association.PhenotypeLM
net.maizegenetics.analysis.association.net.maizegenetics.analysis.association.ReferenceProbabilityFELM
net.maizegenetics.analysis.association.net.maizegenetics.analysis.association.RegRidgeEmmaDoubleMatrix
net.maizegenetics.analysis.association.net.maizegenetics.analysis.association.RidgeRegressionEmmaPlugin
net.maizegenetics.analysis.association.net.maizegenetics.analysis.association.WeightedMLMPlugin
net.maizegenetics.analysis.association.net.maizegenetics.analysis.association.package-info
net.maizegenetics.analysis.avro
net.maizegenetics.analysis.avro.net.maizegenetics.analysis.avro.AvroConstants
net.maizegenetics.analysis.avro.net.maizegenetics.analysis.avro.ExportAvro
net.maizegenetics.analysis.avro.net.maizegenetics.analysis.avro.GenericArrayPositions
net.maizegenetics.analysis.avro.net.maizegenetics.analysis.avro.GenericArrayTaxa
net.maizegenetics.analysis.avro.net.maizegenetics.analysis.avro.GenericMapAnnotations
net.maizegenetics.analysis.avro.net.maizegenetics.analysis.avro.GenericRecordChromosome
net.maizegenetics.analysis.avro.net.maizegenetics.analysis.avro.GenericRecordGenotype
net.maizegenetics.analysis.avro.net.maizegenetics.analysis.avro.GenericRecordGenotypeTable
net.maizegenetics.analysis.avro.net.maizegenetics.analysis.avro.GenericRecordPosition
net.maizegenetics.analysis.avro.net.maizegenetics.analysis.avro.GenericRecordTaxon
net.maizegenetics.analysis.avro.net.maizegenetics.analysis.avro.ImportAvro
net.maizegenetics.analysis.b4r
net.maizegenetics.analysis.b4r.net.maizegenetics.analysis.b4r.B4RPhenotypeUtils
net.maizegenetics.analysis.b4r.net.maizegenetics.analysis.b4r.GetPhenotypeFromB4RPlugin
net.maizegenetics.analysis.chart
net.maizegenetics.analysis.chart.net.maizegenetics.analysis.chart.AbstractDisplayPlugin
net.maizegenetics.analysis.chart.net.maizegenetics.analysis.chart.BarChart.gif
net.maizegenetics.analysis.chart.net.maizegenetics.analysis.chart.BarChartPanel
net.maizegenetics.analysis.chart.net.maizegenetics.analysis.chart.BasicChartPanel
net.maizegenetics.analysis.chart.net.maizegenetics.analysis.chart.BasicGraphFrame
net.maizegenetics.analysis.chart.net.maizegenetics.analysis.chart.ChartDisplayPlugin
net.maizegenetics.analysis.chart.net.maizegenetics.analysis.chart.HistogramPanel
net.maizegenetics.analysis.chart.net.maizegenetics.analysis.chart.ManhattanDisplayPlugin
net.maizegenetics.analysis.chart.net.maizegenetics.analysis.chart.ManhattanNumberFormat
net.maizegenetics.analysis.chart.net.maizegenetics.analysis.chart.PieChartPanel
net.maizegenetics.analysis.chart.net.maizegenetics.analysis.chart.QQDisplayPlugin
net.maizegenetics.analysis.chart.net.maizegenetics.analysis.chart.TableDisplayPlugin
net.maizegenetics.analysis.chart.net.maizegenetics.analysis.chart.TableReportBoxWhiskerCatDataset
net.maizegenetics.analysis.chart.net.maizegenetics.analysis.chart.TableReportManhattanDataset
net.maizegenetics.analysis.chart.net.maizegenetics.analysis.chart.TableReportPieDataset
net.maizegenetics.analysis.chart.net.maizegenetics.analysis.chart.TableReportQQDataset
net.maizegenetics.analysis.chart.net.maizegenetics.analysis.chart.TableReportStatCategoryDataset
net.maizegenetics.analysis.chart.net.maizegenetics.analysis.chart.TableReportXYDataset
net.maizegenetics.analysis.chart.net.maizegenetics.analysis.chart.XYAndLineToolTipGenerator
net.maizegenetics.analysis.chart.net.maizegenetics.analysis.chart.XYMultipleYToolTipGenerator
net.maizegenetics.analysis.chart.net.maizegenetics.analysis.chart.XYScatterAndLinePanel
net.maizegenetics.analysis.chart.net.maizegenetics.analysis.chart.XYScatterMultipleYPanel
net.maizegenetics.analysis.chart.net.maizegenetics.analysis.chart.XYScatterPanel
net.maizegenetics.analysis.chart.net.maizegenetics.analysis.chart.package-info
net.maizegenetics.analysis.clustering
net.maizegenetics.analysis.clustering.net.maizegenetics.analysis.clustering.Haplotype
net.maizegenetics.analysis.clustering.net.maizegenetics.analysis.clustering.HaplotypeCluster
net.maizegenetics.analysis.clustering.net.maizegenetics.analysis.clustering.HaplotypeClusterer
net.maizegenetics.analysis.clustering.net.maizegenetics.analysis.clustering.package-info
net.maizegenetics.analysis.data
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.AddReferenceAlleleToHDF5Plugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.AddReferenceToGenotypePlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.AdjustPhasingPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.BuildUnfinishedHDF5GenotypesPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.CombineDataSetsPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.ConvertAlignmentCoordinatesPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.CountAssociationsPlugin.kt
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.CreateHybridGenotypesPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.ExportMultiplePlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.ExportPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.ExtractHapmapSubsetPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.FeatureListToPositionsPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.FileLoadPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.FindInversionsPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.GenomeAnnosDBQueryToPositionListPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.GenosToABHPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.GenotypeSummaryPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.GenotypeToAdditiveValuesPlugin.kt
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.GetPositionListPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.GetTaxaListPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.HDF5SummaryPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.HetsToUnknownPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.IdentityRecognitionPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.IndelsToUnknownPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.IntersectionAlignmentPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.KmerCountingPlugin.kt
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.LIXPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.LowLevelCopyOfHDF5
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.MaskGenotypePlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.MeanR2FromLDPlugin.kt
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.MemoryUsagePlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.MergeAlignmentsSameSitesPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.MergeGenotypeTablesPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.MergeGenotypeTablesPluginV2
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.MergeHDF5GenotypesSameSitesPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.MergeRenameDeleteTaxaPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.MigrateHDF5FromT4T5
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.PassThroughPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.PlinkLoadPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.PrincipalComponentsPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.ProjectPcsAndRunModelSelectionPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.ProjectionLoadPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.SeparatePlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.SetLowDepthGenosToMissingPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.SortGenotypeFilePlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.SortTaxaAlphabeticallyPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.SplitHDF5ByChromosomePlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.SubtractGenotypesPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.SynonymizerPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.ThinSitesByPositionPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.UnionAlignmentPlugin
net.maizegenetics.analysis.data.net.maizegenetics.analysis.data.package-info
net.maizegenetics.analysis.distance
net.maizegenetics.analysis.distance.net.maizegenetics.analysis.distance.AMatrixPlugin
net.maizegenetics.analysis.distance.net.maizegenetics.analysis.distance.AddDistanceMatrixPlugin
net.maizegenetics.analysis.distance.net.maizegenetics.analysis.distance.DistanceMatrixPlugin
net.maizegenetics.analysis.distance.net.maizegenetics.analysis.distance.DistanceMatrixRangesPlugin
net.maizegenetics.analysis.distance.net.maizegenetics.analysis.distance.DominanceNormalizedIBSMatrix
net.maizegenetics.analysis.distance.net.maizegenetics.analysis.distance.DominanceRelationshipMatrix
net.maizegenetics.analysis.distance.net.maizegenetics.analysis.distance.EndelmanDistanceMatrix
net.maizegenetics.analysis.distance.net.maizegenetics.analysis.distance.GCTADistanceMatrix
net.maizegenetics.analysis.distance.net.maizegenetics.analysis.distance.HMatrixPlugin
net.maizegenetics.analysis.distance.net.maizegenetics.analysis.distance.IBSDistanceMatrix
net.maizegenetics.analysis.distance.net.maizegenetics.analysis.distance.IBSDistanceMatrix2Alleles
net.maizegenetics.analysis.distance.net.maizegenetics.analysis.distance.IBSDistanceMatrix3Alleles
net.maizegenetics.analysis.distance.net.maizegenetics.analysis.distance.IBSDistanceMatrixOneByAll
net.maizegenetics.analysis.distance.net.maizegenetics.analysis.distance.Kinship
net.maizegenetics.analysis.distance.net.maizegenetics.analysis.distance.KinshipPlugin
net.maizegenetics.analysis.distance.net.maizegenetics.analysis.distance.MultiDimensionalScalingPlugin
net.maizegenetics.analysis.distance.net.maizegenetics.analysis.distance.RemoveNaNFromDistanceMatrixPlugin
net.maizegenetics.analysis.distance.net.maizegenetics.analysis.distance.SubtractDistanceMatrixPlugin
net.maizegenetics.analysis.distance.net.maizegenetics.analysis.distance.VCAPScanPlugin
net.maizegenetics.analysis.distance.net.maizegenetics.analysis.distance.package-info
net.maizegenetics.analysis.filter
net.maizegenetics.analysis.filter.net.maizegenetics.analysis.filter.FilterAlignmentPlugin
net.maizegenetics.analysis.filter.net.maizegenetics.analysis.filter.FilterBySites
net.maizegenetics.analysis.filter.net.maizegenetics.analysis.filter.FilterByTaxa
net.maizegenetics.analysis.filter.net.maizegenetics.analysis.filter.FilterDataSetPlugin
net.maizegenetics.analysis.filter.net.maizegenetics.analysis.filter.FilterSiteBuilderPlugin
net.maizegenetics.analysis.filter.net.maizegenetics.analysis.filter.FilterSiteNamePlugin
net.maizegenetics.analysis.filter.net.maizegenetics.analysis.filter.FilterSubsetPlugin
net.maizegenetics.analysis.filter.net.maizegenetics.analysis.filter.FilterTaxaBuilderPlugin
net.maizegenetics.analysis.filter.net.maizegenetics.analysis.filter.FilterTaxaPropertiesPlugin
net.maizegenetics.analysis.filter.net.maizegenetics.analysis.filter.FilterTraitsDialog
net.maizegenetics.analysis.filter.net.maizegenetics.analysis.filter.FilterTraitsPlugin
net.maizegenetics.analysis.filter.net.maizegenetics.analysis.filter.package-info
net.maizegenetics.analysis.gbs
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.AnnotateTOPM
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.AnnotateTOPMwSAMPlugin
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.Barcode
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.BinaryToTextPlugin
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.Clusters
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.CompareGenosBetweenHapMapFilesPlugin
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.ContigPETagCountPlugin
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.DiscoverySNPCallerPlugin
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.FastqToPETagCountPlugin
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.FastqToTBTPlugin
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.FastqToTagCountPlugin
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.KeepSpecifiedReadsinFastqPlugin
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.KeepSpecifiedSitesInTOPMPlugin
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.KmerToTBTPlugin
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.KmerToTagCountPlugin
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.MergeDuplicateSNPsPlugin
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.MergeMultipleTOPMPlugin
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.MergeMultipleTagCountPlugin
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.MergePETagCountPlugin
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.MergeTagsByTaxaFilesByRowPlugin
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.MergeTagsByTaxaFilesPlugin
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.ModifyTBTHDF5Plugin
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.PEParseBarcodeRead
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.PEReadBarcodeResult
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.ParseBarcodeRead
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.PolymorphismFinder
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.ProductionPipeline
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.ProductionPipelineMain
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.QseqToPETagCountPlugin
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.QseqToTBTPlugin
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.QseqToTagCountPlugin
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.ReadBarcodeResult
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.SAMConverterPlugin
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.SAMWGMapConverterPlugin
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.SNPLogging
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.SeqToTBTHDF5Plugin
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.ShortReadBarcodeResult
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.SimpleGenotypeSBit
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.SmithWaterman
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.TOPMSummaryPlugin
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.TagAgainstAnchor
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.TagAgainstAnchorHypothesis
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.TagAgainstAnchorPlugin
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.TagBlockPosition
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.TagCountToFastqPlugin
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.TagMatchFinder
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.TerryPipelines
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.TextToBinaryPlugin
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.UNetworkFilter
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.UTagCountToTagPairPlugin
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.UTagPairFinder
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.UTagPairToTOPMPlugin
net.maizegenetics.analysis.gbs.neobio
net.maizegenetics.analysis.gbs.neobio.net.maizegenetics.analysis.gbs.neobio.AlignmentBlock
net.maizegenetics.analysis.gbs.neobio.net.maizegenetics.analysis.gbs.neobio.BasicScoringScheme
net.maizegenetics.analysis.gbs.neobio.net.maizegenetics.analysis.gbs.neobio.CharSequence
net.maizegenetics.analysis.gbs.neobio.net.maizegenetics.analysis.gbs.neobio.CrochemoreLandauZivUkelson
net.maizegenetics.analysis.gbs.neobio.net.maizegenetics.analysis.gbs.neobio.CrochemoreLandauZivUkelsonGlobalAlignment
net.maizegenetics.analysis.gbs.neobio.net.maizegenetics.analysis.gbs.neobio.CrochemoreLandauZivUkelsonLocalAlignment
net.maizegenetics.analysis.gbs.neobio.net.maizegenetics.analysis.gbs.neobio.Factor
net.maizegenetics.analysis.gbs.neobio.net.maizegenetics.analysis.gbs.neobio.FactorSequence
net.maizegenetics.analysis.gbs.neobio.net.maizegenetics.analysis.gbs.neobio.IncompatibleScoringSchemeException
net.maizegenetics.analysis.gbs.neobio.net.maizegenetics.analysis.gbs.neobio.InvalidScoringMatrixException
net.maizegenetics.analysis.gbs.neobio.net.maizegenetics.analysis.gbs.neobio.InvalidSequenceException
net.maizegenetics.analysis.gbs.neobio.net.maizegenetics.analysis.gbs.neobio.LocalAlignmentBlock
net.maizegenetics.analysis.gbs.neobio.net.maizegenetics.analysis.gbs.neobio.Matrix
net.maizegenetics.analysis.gbs.neobio.net.maizegenetics.analysis.gbs.neobio.NeedlemanWunsch
net.maizegenetics.analysis.gbs.neobio.net.maizegenetics.analysis.gbs.neobio.OutMatrix
net.maizegenetics.analysis.gbs.neobio.net.maizegenetics.analysis.gbs.neobio.PairwiseAlignment
net.maizegenetics.analysis.gbs.neobio.net.maizegenetics.analysis.gbs.neobio.PairwiseAlignmentAlgorithm
net.maizegenetics.analysis.gbs.neobio.net.maizegenetics.analysis.gbs.neobio.ScoringMatrix
net.maizegenetics.analysis.gbs.neobio.net.maizegenetics.analysis.gbs.neobio.ScoringScheme
net.maizegenetics.analysis.gbs.neobio.net.maizegenetics.analysis.gbs.neobio.Smawk
net.maizegenetics.analysis.gbs.neobio.net.maizegenetics.analysis.gbs.neobio.SmithWaterman
net.maizegenetics.analysis.gbs.neobio.net.maizegenetics.analysis.gbs.neobio.Trie
net.maizegenetics.analysis.gbs
net.maizegenetics.analysis.gbs.net.maizegenetics.analysis.gbs.package-info
net.maizegenetics.analysis.gbs.pana
net.maizegenetics.analysis.gbs.pana.net.maizegenetics.analysis.gbs.pana.PanAAddPosToTagMapPlugin
net.maizegenetics.analysis.gbs.pana.net.maizegenetics.analysis.gbs.pana.PanABuildPivotTBTPlugin
net.maizegenetics.analysis.gbs.pana.net.maizegenetics.analysis.gbs.pana.PanABuildTagBlockPosPlugin
net.maizegenetics.analysis.gbs.pana.net.maizegenetics.analysis.gbs.pana.PanABuildTagGWASMapPlugin
net.maizegenetics.analysis.gbs.pana.net.maizegenetics.analysis.gbs.pana.PanABuildTrainingSetPlugin
net.maizegenetics.analysis.gbs.pana.net.maizegenetics.analysis.gbs.pana.PanAFilteringTagMapPlugin
net.maizegenetics.analysis.gbs.pana.net.maizegenetics.analysis.gbs.pana.PanAH5ToAnchorPlugin
net.maizegenetics.analysis.gbs.pana.net.maizegenetics.analysis.gbs.pana.PanAMergeMappingResultPlugin
net.maizegenetics.analysis.gbs.pana.net.maizegenetics.analysis.gbs.pana.PanAModelTrainingPlugin
net.maizegenetics.analysis.gbs.pana.net.maizegenetics.analysis.gbs.pana.PanAPredictionPlugin
net.maizegenetics.analysis.gbs.pana.net.maizegenetics.analysis.gbs.pana.PanAReadDigestPlugin
net.maizegenetics.analysis.gbs.pana.net.maizegenetics.analysis.gbs.pana.PanAReadToKmerPlugin
net.maizegenetics.analysis.gbs.pana.net.maizegenetics.analysis.gbs.pana.PanASamToMultiPositionTOPMPlugin
net.maizegenetics.analysis.gbs.pana.net.maizegenetics.analysis.gbs.pana.PanASplitTBTPlugin
net.maizegenetics.analysis.gbs.pana.net.maizegenetics.analysis.gbs.pana.PanASplitTagBlockPosPlugin
net.maizegenetics.analysis.gbs.pana.net.maizegenetics.analysis.gbs.pana.PanATagGWASMappingPlugin
net.maizegenetics.analysis.gbs.pana.net.maizegenetics.analysis.gbs.pana.PanATagMapToFastaPlugin
net.maizegenetics.analysis.gbs.pana.net.maizegenetics.analysis.gbs.pana.PanAUsageExample
net.maizegenetics.analysis.gbs.pana.net.maizegenetics.analysis.gbs.pana.package-info
net.maizegenetics.analysis.gbs.repgen
net.maizegenetics.analysis.gbs.repgen.net.maizegenetics.analysis.gbs.repgen.AlignmentInfo
net.maizegenetics.analysis.gbs.repgen.net.maizegenetics.analysis.gbs.repgen.RGBSProductionSNPCallerPlugin
net.maizegenetics.analysis.gbs.repgen.net.maizegenetics.analysis.gbs.repgen.RampSeqAlignFromBlastTags
net.maizegenetics.analysis.gbs.repgen.net.maizegenetics.analysis.gbs.repgen.RefTagData
net.maizegenetics.analysis.gbs.repgen.net.maizegenetics.analysis.gbs.repgen.RepGenAlignerPlugin
net.maizegenetics.analysis.gbs.repgen.net.maizegenetics.analysis.gbs.repgen.RepGenLDAnalysisPlugin
net.maizegenetics.analysis.gbs.repgen.net.maizegenetics.analysis.gbs.repgen.RepGenLoadSeqToDBPlugin
net.maizegenetics.analysis.gbs.repgen.net.maizegenetics.analysis.gbs.repgen.RepGenPhase2AlignerPlugin
net.maizegenetics.analysis.gbs.repgen.net.maizegenetics.analysis.gbs.repgen.TagCorrelationInfo
net.maizegenetics.analysis.gbs.v2
net.maizegenetics.analysis.gbs.v2.net.maizegenetics.analysis.gbs.v2.BarcodeTrie
net.maizegenetics.analysis.gbs.v2.net.maizegenetics.analysis.gbs.v2.DiscoverySNPCallerPluginV2
net.maizegenetics.analysis.gbs.v2.net.maizegenetics.analysis.gbs.v2.EnzymeList
net.maizegenetics.analysis.gbs.v2.net.maizegenetics.analysis.gbs.v2.GBSEnzyme
net.maizegenetics.analysis.gbs.v2.net.maizegenetics.analysis.gbs.v2.GBSSeqToTagDBPlugin
net.maizegenetics.analysis.gbs.v2.net.maizegenetics.analysis.gbs.v2.GBSUtils
net.maizegenetics.analysis.gbs.v2.net.maizegenetics.analysis.gbs.v2.GetTagSequenceFromDBPlugin
net.maizegenetics.analysis.gbs.v2.net.maizegenetics.analysis.gbs.v2.GetTagTaxaDistFromDBPlugin
net.maizegenetics.analysis.gbs.v2.net.maizegenetics.analysis.gbs.v2.ProductionSNPCallerPluginV2
net.maizegenetics.analysis.gbs.v2.net.maizegenetics.analysis.gbs.v2.SAMToGBSdbPlugin
net.maizegenetics.analysis.gbs.v2.net.maizegenetics.analysis.gbs.v2.SNPCutPosTagVerificationPlugin
net.maizegenetics.analysis.gbs.v2.net.maizegenetics.analysis.gbs.v2.SNPQualityProfilerPlugin
net.maizegenetics.analysis.gbs.v2.net.maizegenetics.analysis.gbs.v2.TagExportToFastqPlugin
net.maizegenetics.analysis.gbs.v2.net.maizegenetics.analysis.gbs.v2.UpdateSNPPositionQualityPlugin
net.maizegenetics.analysis.gobii
net.maizegenetics.analysis.gobii.net.maizegenetics.analysis.gobii.BMSConnection
net.maizegenetics.analysis.gobii.net.maizegenetics.analysis.gobii.GOBIIDbUtils
net.maizegenetics.analysis.gobii.net.maizegenetics.analysis.gobii.GOBIIPlugin
net.maizegenetics.analysis.gobii.net.maizegenetics.analysis.gobii.GOBIIPostgresConnection
net.maizegenetics.analysis.gobii.net.maizegenetics.analysis.gobii.GOBII_IFLUtils
net.maizegenetics.analysis.gobii.net.maizegenetics.analysis.gobii.GWAS_IFLPlugin
net.maizegenetics.analysis.gobii.net.maizegenetics.analysis.gobii.HapBreakpoints_IFLFilePlugin
net.maizegenetics.analysis.gobii.net.maizegenetics.analysis.gobii.MarkerDNARun_IFLFilePlugin
net.maizegenetics.analysis.gobii.net.maizegenetics.analysis.gobii.MonetDB_IFLFilePlugin
net.maizegenetics.analysis.gobii.net.maizegenetics.analysis.gobii.PreProcessGOBIIMappingFilePlugin
net.maizegenetics.analysis.gobii.net.maizegenetics.analysis.gobii.SplitFile_IFLFilePlugin
net.maizegenetics.analysis.gobii.net.maizegenetics.analysis.gobii.UpdateMarkerAndDNA_idxes
net.maizegenetics.analysis.images
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.2DPlot.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.DistanceMatrix.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.Diversity.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.Export16.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.Filter.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.FilterNew.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.Filter_horizontal.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.GenePlot.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.Genotype.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.ImputeSNP.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.IntersectJoin.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.Kin.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.LDPlot.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.LinearAssociation.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.LoadFile.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.LogisticAssociation.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.ManhattanPlot.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.Merge.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.Mix.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.NumericalGenotype.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.QQPlot.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.STConvert.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.Separate.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.Synonymizer.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.Table.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.Tassel_Logo.png
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.Tassel_Logo16.png
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.Transform.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.Tree.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.UnionJoin.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.VCAP.png
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.Workflow.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.amatrix.png
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.hmatrix.png
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.homozygous.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.hybrid.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.info.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.inversion.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.lists.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.log.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.lowDepthToMissing.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.mask.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.package-info
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.pca.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.preferences.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.properties.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.resample.png
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.sort.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.speed.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.summary.gif
net.maizegenetics.analysis.images.net.maizegenetics.analysis.images.trash.gif
net.maizegenetics.analysis.imputation
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.AGPMap
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.BackwardForwardAlgorithm
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.BackwardForwardVariableStateNumber
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.BiparentalHaplotypeFinder
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.CallParentAllelesPlugin
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.ClusterGenotypesPlugin
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.CrossProgenyEmissionMatrix
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.EmissionProbability
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.FILLINDonorGenotypeUtils
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.FILLINFindHaplotypesPlugin
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.FILLINImputationAccuracy
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.FILLINImputationPlugin
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.FILLINImputationUtils
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.FSFHapImputationPlugin
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.FindMergeHaplotypesPlugin
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.ImputationAccuracyPlugin
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.ImputationUtils
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.ImputeCrossProgeny
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.ImputeProgenyStatesPlugin
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.ImputedTaxon
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.LDKNNiImputationHetV2Plugin
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.LDKNNiImputationHetV3Plugin
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.LDKNNiImputationPlugin
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.MergeBreakpointFilesPlugin
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.NucleotideImputationUtils
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.ParentPhasingPlugin
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.PhaseHighCoverage
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.PopulationData
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.RandomGenotypeImputationPlugin
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.ReImputeUpdatedTaxaByFILLINPlugin
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.RemoveIndelsForBeaglePlugin
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.RephaseParents
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.SelfedHaplotypeFinder
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.SubpopulationFinder
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.TransitionProbability
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.TransitionProbabilityWithVariableRecombination
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.UseParentHaplotypes
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.ViterbiAlgorithm
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.ViterbiAlgorithmPlugin
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.ViterbiAlgorithmVariableStateNumber
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.WritePopulationAlignmentPlugin
net.maizegenetics.analysis.imputation.net.maizegenetics.analysis.imputation.package-info
net.maizegenetics.analysis.modelfitter
net.maizegenetics.analysis.modelfitter.net.maizegenetics.analysis.modelfitter.AbstractAdditiveSite
net.maizegenetics.analysis.modelfitter.net.maizegenetics.analysis.modelfitter.AbstractForwardRegression
net.maizegenetics.analysis.modelfitter.net.maizegenetics.analysis.modelfitter.AddDomPermutationTestSpliterator
net.maizegenetics.analysis.modelfitter.net.maizegenetics.analysis.modelfitter.AddPlusDomModelEffect
net.maizegenetics.analysis.modelfitter.net.maizegenetics.analysis.modelfitter.AdditiveModelForwardRegression
net.maizegenetics.analysis.modelfitter.net.maizegenetics.analysis.modelfitter.AdditiveResidualForwardRegression
net.maizegenetics.analysis.modelfitter.net.maizegenetics.analysis.modelfitter.AdditiveSite
net.maizegenetics.analysis.modelfitter.net.maizegenetics.analysis.modelfitter.AdditiveSiteStorePlugin
net.maizegenetics.analysis.modelfitter.net.maizegenetics.analysis.modelfitter.CovariatePermutationTestSpliterator
net.maizegenetics.analysis.modelfitter.net.maizegenetics.analysis.modelfitter.ForwardRegression
net.maizegenetics.analysis.modelfitter.net.maizegenetics.analysis.modelfitter.ForwardStepAddDomSpliterator
net.maizegenetics.analysis.modelfitter.net.maizegenetics.analysis.modelfitter.ForwardStepAdditiveSpliterator
net.maizegenetics.analysis.modelfitter.net.maizegenetics.analysis.modelfitter.ForwardStepNestedAdditiveSpliterator
net.maizegenetics.analysis.modelfitter.net.maizegenetics.analysis.modelfitter.ForwardStepSubsettingAdditiveSpliterator
net.maizegenetics.analysis.modelfitter.net.maizegenetics.analysis.modelfitter.ForwardStepSubsettingNestedAdditiveSpliterator
net.maizegenetics.analysis.modelfitter.net.maizegenetics.analysis.modelfitter.GenotypeAdditiveSite
net.maizegenetics.analysis.modelfitter.net.maizegenetics.analysis.modelfitter.NestedCovariatePermutationTestSpliterator
net.maizegenetics.analysis.modelfitter.net.maizegenetics.analysis.modelfitter.RefProbAdditiveSite
net.maizegenetics.analysis.modelfitter.net.maizegenetics.analysis.modelfitter.ResamplingGWASPlugin
net.maizegenetics.analysis.modelfitter.net.maizegenetics.analysis.modelfitter.SNP
net.maizegenetics.analysis.modelfitter.net.maizegenetics.analysis.modelfitter.StepwiseAddDomModelFitter
net.maizegenetics.analysis.modelfitter.net.maizegenetics.analysis.modelfitter.StepwiseAdditiveModelFitter
net.maizegenetics.analysis.modelfitter.net.maizegenetics.analysis.modelfitter.StepwiseAdditiveModelFitterPlugin
net.maizegenetics.analysis.modelfitter.net.maizegenetics.analysis.modelfitter.StepwiseOLSModelFitter
net.maizegenetics.analysis.modelfitter.net.maizegenetics.analysis.modelfitter.StepwiseOLSModelFitterPlugin
net.maizegenetics.analysis.modelfitter.net.maizegenetics.analysis.modelfitter.package-info
net.maizegenetics.analysis.modelfitter.net.maizegenetics.analysis.modelfitter.stepwise.gif
net.maizegenetics.analysis.monetdb
net.maizegenetics.analysis.monetdb.net.maizegenetics.analysis.monetdb.ColumnsToBinaryFullGenomeTablePlugin
net.maizegenetics.analysis.monetdb.net.maizegenetics.analysis.monetdb.ColumnsToBinarySNPOnlyTablePlugin
net.maizegenetics.analysis.monetdb.net.maizegenetics.analysis.monetdb.ColumnsToBinaryUtils
net.maizegenetics.analysis.monetdb.net.maizegenetics.analysis.monetdb.LittleEndianDataOutputStream
net.maizegenetics.analysis.numericaltransform
net.maizegenetics.analysis.numericaltransform.net.maizegenetics.analysis.numericaltransform.AvgPhenotype
net.maizegenetics.analysis.numericaltransform.net.maizegenetics.analysis.numericaltransform.AvgPhenotypeByTaxaPlugin
net.maizegenetics.analysis.numericaltransform.net.maizegenetics.analysis.numericaltransform.BoxCoxTransformation
net.maizegenetics.analysis.numericaltransform.net.maizegenetics.analysis.numericaltransform.BoxCoxTransformationPlugin
net.maizegenetics.analysis.numericaltransform.net.maizegenetics.analysis.numericaltransform.ImputationByMean
net.maizegenetics.analysis.numericaltransform.net.maizegenetics.analysis.numericaltransform.ImputationPlugin
net.maizegenetics.analysis.numericaltransform.net.maizegenetics.analysis.numericaltransform.NumericalGenotypePlugin
net.maizegenetics.analysis.numericaltransform.net.maizegenetics.analysis.numericaltransform.SubtractPhenotype
net.maizegenetics.analysis.numericaltransform.net.maizegenetics.analysis.numericaltransform.SubtractPhenotypeByTaxaPlugin
net.maizegenetics.analysis.numericaltransform.net.maizegenetics.analysis.numericaltransform.TransformDataDialog
net.maizegenetics.analysis.numericaltransform.net.maizegenetics.analysis.numericaltransform.TransformDataPlugin
net.maizegenetics.analysis.numericaltransform.net.maizegenetics.analysis.numericaltransform.kNearestNeighbors
net.maizegenetics.analysis.numericaltransform.net.maizegenetics.analysis.numericaltransform.package-info
net.maizegenetics.analysis
net.maizegenetics.analysis.net.maizegenetics.analysis.package-info
net.maizegenetics.analysis.phg
net.maizegenetics.analysis.phg.net.maizegenetics.analysis.phg.ParseGVCF
net.maizegenetics.analysis.popgen
net.maizegenetics.analysis.popgen.net.maizegenetics.analysis.popgen.DiversityAnalyses
net.maizegenetics.analysis.popgen.net.maizegenetics.analysis.popgen.DonorHypoth
net.maizegenetics.analysis.popgen.net.maizegenetics.analysis.popgen.LDResult
net.maizegenetics.analysis.popgen.net.maizegenetics.analysis.popgen.LinkageDiseqDisplayPlugin
net.maizegenetics.analysis.popgen.net.maizegenetics.analysis.popgen.LinkageDisequilibrium
net.maizegenetics.analysis.popgen.net.maizegenetics.analysis.popgen.LinkageDisequilibriumComponent
net.maizegenetics.analysis.popgen.net.maizegenetics.analysis.popgen.LinkageDisequilibriumMinimapComponent
net.maizegenetics.analysis.popgen.net.maizegenetics.analysis.popgen.LinkageDisequilibriumPlugin
net.maizegenetics.analysis.popgen.net.maizegenetics.analysis.popgen.PolymorphismDistribution
net.maizegenetics.analysis.popgen.net.maizegenetics.analysis.popgen.SequenceDiversityPlugin
net.maizegenetics.analysis.popgen.net.maizegenetics.analysis.popgen.package-info
net.maizegenetics.analysis.rna
net.maizegenetics.analysis.rna.net.maizegenetics.analysis.rna.FindMatchByWordHash
net.maizegenetics.analysis.rna.net.maizegenetics.analysis.rna.LoadRNAContigsToGBSDBPlugin
net.maizegenetics.analysis.rna.net.maizegenetics.analysis.rna.RNADeMultiPlexSeqToDBPlugin
net.maizegenetics.analysis.rna.net.maizegenetics.analysis.rna.RNADeMultiplexProductionPlugin
net.maizegenetics.analysis.tree
net.maizegenetics.analysis.tree.net.maizegenetics.analysis.tree.ArchaeopteryxPlugin
net.maizegenetics.analysis.tree.net.maizegenetics.analysis.tree.ConvertTreeNamesPlugin.kt
net.maizegenetics.analysis.tree.net.maizegenetics.analysis.tree.CreateTreePlugin
net.maizegenetics.analysis.tree.net.maizegenetics.analysis.tree.MergeTreesPlugin.kt
net.maizegenetics.analysis.tree.net.maizegenetics.analysis.tree.RemoveBranchLengthsPlugin.kt
net.maizegenetics.analysis.tree.net.maizegenetics.analysis.tree.SubsetTreePlugin.kt
net.maizegenetics.analysis.tree.net.maizegenetics.analysis.tree.package-info
net.maizegenetics.analysis.workflow
net.maizegenetics.analysis.workflow.net.maizegenetics.analysis.workflow.GLM_(PCA).xml
net.maizegenetics.analysis.workflow.net.maizegenetics.analysis.workflow.GLM_(Q).xml
net.maizegenetics.analysis.workflow.net.maizegenetics.analysis.workflow.MLM_(PCA+K).xml
net.maizegenetics.analysis.workflow.net.maizegenetics.analysis.workflow.MLM_(Q+K).xml
net.maizegenetics.analysis.workflow.net.maizegenetics.analysis.workflow.Taxa_Quality_Control.xml
net.maizegenetics.analysis.workflow.net.maizegenetics.analysis.workflow.WorkflowPlugin
net.maizegenetics.dna
net.maizegenetics.dna.net.maizegenetics.dna.BaseEncoder
net.maizegenetics.dna.net.maizegenetics.dna.WHICH_ALLELE
net.maizegenetics.dna.map
net.maizegenetics.dna.map.net.maizegenetics.dna.map.AbstractPETagsOnPhysicalMap
net.maizegenetics.dna.map.net.maizegenetics.dna.map.AbstractTagsOnPhysicalMap
net.maizegenetics.dna.map.net.maizegenetics.dna.map.Chromosome
net.maizegenetics.dna.map.net.maizegenetics.dna.map.DonorHaplotypes
net.maizegenetics.dna.map.net.maizegenetics.dna.map.GVCFGenomeSequence
net.maizegenetics.dna.map.net.maizegenetics.dna.map.GVCFGenomeSequenceBuilder
net.maizegenetics.dna.map.net.maizegenetics.dna.map.GeneralPosition
net.maizegenetics.dna.map.net.maizegenetics.dna.map.GenomeFeature
net.maizegenetics.dna.map.net.maizegenetics.dna.map.GenomeFeatureBuilder
net.maizegenetics.dna.map.net.maizegenetics.dna.map.GenomeFeatureMap
net.maizegenetics.dna.map.net.maizegenetics.dna.map.GenomeFeatureMapBuilder
net.maizegenetics.dna.map.net.maizegenetics.dna.map.GenomeSequence
net.maizegenetics.dna.map.net.maizegenetics.dna.map.GenomeSequenceBuilder
net.maizegenetics.dna.map.net.maizegenetics.dna.map.PETagsOnPhysicalMap
net.maizegenetics.dna.map.net.maizegenetics.dna.map.PETagsOnPhysicalMapV3
net.maizegenetics.dna.map.net.maizegenetics.dna.map.Position
net.maizegenetics.dna.map.net.maizegenetics.dna.map.PositionArrayList
net.maizegenetics.dna.map.net.maizegenetics.dna.map.PositionHDF5List
net.maizegenetics.dna.map.net.maizegenetics.dna.map.PositionList
net.maizegenetics.dna.map.net.maizegenetics.dna.map.PositionListBuilder
net.maizegenetics.dna.map.net.maizegenetics.dna.map.PositionListIOUtils
net.maizegenetics.dna.map.net.maizegenetics.dna.map.PositionListTableReport
net.maizegenetics.dna.map.net.maizegenetics.dna.map.TOPMInterface
net.maizegenetics.dna.map.net.maizegenetics.dna.map.TOPMTableReport
net.maizegenetics.dna.map.net.maizegenetics.dna.map.TOPMUtils
net.maizegenetics.dna.map.net.maizegenetics.dna.map.TagGWASMap
net.maizegenetics.dna.map.net.maizegenetics.dna.map.TagGWASMapInfo
net.maizegenetics.dna.map.net.maizegenetics.dna.map.TagGeneticMappingInfo
net.maizegenetics.dna.map.net.maizegenetics.dna.map.TagLocus
net.maizegenetics.dna.map.net.maizegenetics.dna.map.TagMappingInfo
net.maizegenetics.dna.map.net.maizegenetics.dna.map.TagMappingInfoV3
net.maizegenetics.dna.map.net.maizegenetics.dna.map.TagsOnGeneticMap
net.maizegenetics.dna.map.net.maizegenetics.dna.map.TagsOnPhysMapHDF5
net.maizegenetics.dna.map.net.maizegenetics.dna.map.TagsOnPhysicalMap
net.maizegenetics.dna.map.net.maizegenetics.dna.map.TagsOnPhysicalMapV3
net.maizegenetics.dna.map.net.maizegenetics.dna.map.UpdateTOPMWithGeneticMapping
net.maizegenetics.dna.map.net.maizegenetics.dna.map.package-info
net.maizegenetics.dna
net.maizegenetics.dna.net.maizegenetics.dna.package-info
net.maizegenetics.dna.pd
net.maizegenetics.dna.pd.net.maizegenetics.dna.pd.FolderParser
net.maizegenetics.dna.pd.net.maizegenetics.dna.pd.PDAnnotation
net.maizegenetics.dna.pd.net.maizegenetics.dna.pd.PDReport
net.maizegenetics.dna.pd.net.maizegenetics.dna.pd.SiteAnnotation
net.maizegenetics.dna.pd.net.maizegenetics.dna.pd.package-info
net.maizegenetics.dna.read
net.maizegenetics.dna.read.net.maizegenetics.dna.read.FastqChunk
net.maizegenetics.dna.read.net.maizegenetics.dna.read.PEFastqChunk
net.maizegenetics.dna.read.net.maizegenetics.dna.read.PERead
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net.maizegenetics.stats.EMMA.net.maizegenetics.stats.EMMA.package-info
net.maizegenetics.stats.PCA
net.maizegenetics.stats.PCA.net.maizegenetics.stats.PCA.ClassicMds
net.maizegenetics.stats.PCA.net.maizegenetics.stats.PCA.PrinComp
net.maizegenetics.stats.PCA.net.maizegenetics.stats.PCA.package-info
net.maizegenetics.stats.linearmodels
net.maizegenetics.stats.linearmodels.net.maizegenetics.stats.linearmodels.BasicLevel
net.maizegenetics.stats.linearmodels.net.maizegenetics.stats.linearmodels.BasicShuffler
net.maizegenetics.stats.linearmodels.net.maizegenetics.stats.linearmodels.CovariateModelEffect
net.maizegenetics.stats.linearmodels.net.maizegenetics.stats.linearmodels.FactorModelEffect
net.maizegenetics.stats.linearmodels.net.maizegenetics.stats.linearmodels.Level
net.maizegenetics.stats.linearmodels.net.maizegenetics.stats.linearmodels.LinearModelForStepwiseRegression
net.maizegenetics.stats.linearmodels.net.maizegenetics.stats.linearmodels.LinearModelUtils
net.maizegenetics.stats.linearmodels.net.maizegenetics.stats.linearmodels.ModelEffect
net.maizegenetics.stats.linearmodels.net.maizegenetics.stats.linearmodels.ModelEffectUtils
net.maizegenetics.stats.linearmodels.net.maizegenetics.stats.linearmodels.NestedCovariateModelEffect
net.maizegenetics.stats.linearmodels.net.maizegenetics.stats.linearmodels.PartitionedLinearModel
net.maizegenetics.stats.linearmodels.net.maizegenetics.stats.linearmodels.SolveByOrthogonalizing
net.maizegenetics.stats.linearmodels.net.maizegenetics.stats.linearmodels.SweepFast
net.maizegenetics.stats.linearmodels.net.maizegenetics.stats.linearmodels.SweepFastLinearModel
net.maizegenetics.stats.linearmodels.net.maizegenetics.stats.linearmodels.SweepFastNestedModel
net.maizegenetics.stats.linearmodels.net.maizegenetics.stats.linearmodels.SymmetricMatrixInverterDM
net.maizegenetics.stats.linearmodels.net.maizegenetics.stats.linearmodels.WithinPopulationPermuter
net.maizegenetics.stats.linearmodels.net.maizegenetics.stats.linearmodels.package-info
net.maizegenetics.stats.math
net.maizegenetics.stats.math.net.maizegenetics.stats.math.ErrorFunction
net.maizegenetics.stats.math.net.maizegenetics.stats.math.GammaFunction
net.maizegenetics.stats.math.net.maizegenetics.stats.math.MersenneTwisterFast
net.maizegenetics.stats.math.net.maizegenetics.stats.math.OrderEnumerator
net.maizegenetics.stats.math.net.maizegenetics.stats.math.OrthogonalHints
net.maizegenetics.stats.math.net.maizegenetics.stats.math.package.html
net.maizegenetics.stats.statistics
net.maizegenetics.stats.statistics.net.maizegenetics.stats.statistics.ApproxFastChiSquareDistribution
net.maizegenetics.stats.statistics.net.maizegenetics.stats.statistics.ChiSquareDistribution
net.maizegenetics.stats.statistics.net.maizegenetics.stats.statistics.ChiSquareTest
net.maizegenetics.stats.statistics.net.maizegenetics.stats.statistics.ContigencyTable
net.maizegenetics.stats.statistics.net.maizegenetics.stats.statistics.ExponentialDistribution
net.maizegenetics.stats.statistics.net.maizegenetics.stats.statistics.FisherExact
net.maizegenetics.stats.statistics.net.maizegenetics.stats.statistics.GammaDistribution
net.maizegenetics.stats.statistics.net.maizegenetics.stats.statistics.LikelihoodRatioTest
net.maizegenetics.stats.statistics.net.maizegenetics.stats.statistics.NormalDistribution
net.maizegenetics.stats.statistics.net.maizegenetics.stats.statistics.ParetoDistribution
net.maizegenetics.stats.statistics.net.maizegenetics.stats.statistics.PenalizedLikelihood
net.maizegenetics.stats.statistics.net.maizegenetics.stats.statistics.package.html
net.maizegenetics.tassel
net.maizegenetics.tassel.net.maizegenetics.tassel.AboutBox
net.maizegenetics.tassel.net.maizegenetics.tassel.Construction.gif
net.maizegenetics.tassel.net.maizegenetics.tassel.DataTreePanel
net.maizegenetics.tassel.net.maizegenetics.tassel.HelpDialog
net.maizegenetics.tassel.net.maizegenetics.tassel.Home.html
net.maizegenetics.tassel.net.maizegenetics.tassel.Logo_small.png
net.maizegenetics.tassel.net.maizegenetics.tassel.PreferencesDialog
net.maizegenetics.tassel.net.maizegenetics.tassel.SeqViewerPanel
net.maizegenetics.tassel.net.maizegenetics.tassel.ShowParameterCachePlugin
net.maizegenetics.tassel.net.maizegenetics.tassel.TASSELMainApp
net.maizegenetics.tassel.net.maizegenetics.tassel.TASSELMainFrame
net.maizegenetics.tassel.net.maizegenetics.tassel.TableReportPanel
net.maizegenetics.tassel.net.maizegenetics.tassel.TasselLogging
net.maizegenetics.tassel.net.maizegenetics.tassel.left.gif
net.maizegenetics.tassel.net.maizegenetics.tassel.package-info
net.maizegenetics.tassel.net.maizegenetics.tassel.right.gif
net.maizegenetics.taxa
net.maizegenetics.taxa.net.maizegenetics.taxa.IdentifierSynonymizer
net.maizegenetics.taxa.net.maizegenetics.taxa.TaxaArrayList
net.maizegenetics.taxa.net.maizegenetics.taxa.TaxaList
net.maizegenetics.taxa.net.maizegenetics.taxa.TaxaListBuilder
net.maizegenetics.taxa.net.maizegenetics.taxa.TaxaListIOUtils
net.maizegenetics.taxa.net.maizegenetics.taxa.TaxaListTableReport
net.maizegenetics.taxa.net.maizegenetics.taxa.TaxaListUtils
net.maizegenetics.taxa.net.maizegenetics.taxa.TaxaNoIndexList
net.maizegenetics.taxa.net.maizegenetics.taxa.TaxaTissueDist
net.maizegenetics.taxa.net.maizegenetics.taxa.Taxon
net.maizegenetics.taxa.distance
net.maizegenetics.taxa.distance.net.maizegenetics.taxa.distance.DistanceMatrix
net.maizegenetics.taxa.distance.net.maizegenetics.taxa.distance.DistanceMatrixBuilder
net.maizegenetics.taxa.distance.net.maizegenetics.taxa.distance.DistanceMatrixUtils
net.maizegenetics.taxa.distance.net.maizegenetics.taxa.distance.DistanceMatrixWithCounts
net.maizegenetics.taxa.distance.net.maizegenetics.taxa.distance.ReadDistanceMatrix
net.maizegenetics.taxa.distance.net.maizegenetics.taxa.distance.WriteDistanceMatrix
net.maizegenetics.taxa.distance.net.maizegenetics.taxa.distance.package.html
net.maizegenetics.taxa
net.maizegenetics.taxa.net.maizegenetics.taxa.package-info
net.maizegenetics.taxa.tree
net.maizegenetics.taxa.tree.net.maizegenetics.taxa.tree.AttributeNode
net.maizegenetics.taxa.tree.net.maizegenetics.taxa.tree.BranchLimits
net.maizegenetics.taxa.tree.net.maizegenetics.taxa.tree.CladeSystem
net.maizegenetics.taxa.tree.net.maizegenetics.taxa.tree.LabelMapping
net.maizegenetics.taxa.tree.net.maizegenetics.taxa.tree.MultiParameterized
net.maizegenetics.taxa.tree.net.maizegenetics.taxa.tree.NeighborJoiningTree
net.maizegenetics.taxa.tree.net.maizegenetics.taxa.tree.NewickUtils.kt
net.maizegenetics.taxa.tree.net.maizegenetics.taxa.tree.Node
net.maizegenetics.taxa.tree.net.maizegenetics.taxa.tree.NodeFactory
net.maizegenetics.taxa.tree.net.maizegenetics.taxa.tree.NodeUtils
net.maizegenetics.taxa.tree.net.maizegenetics.taxa.tree.Parameterized
net.maizegenetics.taxa.tree.net.maizegenetics.taxa.tree.RootedTreeUtils
net.maizegenetics.taxa.tree.net.maizegenetics.taxa.tree.SimpleNode
net.maizegenetics.taxa.tree.net.maizegenetics.taxa.tree.SimpleTree
net.maizegenetics.taxa.tree.net.maizegenetics.taxa.tree.SplitSystem
net.maizegenetics.taxa.tree.net.maizegenetics.taxa.tree.SplitUtils
net.maizegenetics.taxa.tree.net.maizegenetics.taxa.tree.Tree
net.maizegenetics.taxa.tree.net.maizegenetics.taxa.tree.TreeClusters
net.maizegenetics.taxa.tree.net.maizegenetics.taxa.tree.TreeParseException
net.maizegenetics.taxa.tree.net.maizegenetics.taxa.tree.TreeUtils
net.maizegenetics.taxa.tree.net.maizegenetics.taxa.tree.UPGMATree
net.maizegenetics.taxa.tree.net.maizegenetics.taxa.tree.Units
net.maizegenetics.taxa.tree.net.maizegenetics.taxa.tree.UnitsProvider
net.maizegenetics.taxa.tree.net.maizegenetics.taxa.tree.package.html
net.maizegenetics.util
net.maizegenetics.util.net.maizegenetics.util.AbstractTableReport
net.maizegenetics.util.net.maizegenetics.util.ArgsEngine
net.maizegenetics.util.net.maizegenetics.util.BasicFileFilter
net.maizegenetics.util.net.maizegenetics.util.BitSet
net.maizegenetics.util.net.maizegenetics.util.BitUtil
net.maizegenetics.util.net.maizegenetics.util.BuilderFromVCFUtil
net.maizegenetics.util.net.maizegenetics.util.ChangeLog.kt
net.maizegenetics.util.net.maizegenetics.util.CheckSum
net.maizegenetics.util.net.maizegenetics.util.ColumnMatrix.kt
net.maizegenetics.util.net.maizegenetics.util.ConvertOldFastqToModernFormatPlugin
net.maizegenetics.util.net.maizegenetics.util.DirectedGraph
net.maizegenetics.util.net.maizegenetics.util.DirectoryCrawler
net.maizegenetics.util.net.maizegenetics.util.DoubleFormat
net.maizegenetics.util.net.maizegenetics.util.ExceptionUtils
net.maizegenetics.util.net.maizegenetics.util.FormattedInput
net.maizegenetics.util.net.maizegenetics.util.FormattedOutput
net.maizegenetics.util.net.maizegenetics.util.GeneralAnnotation
net.maizegenetics.util.net.maizegenetics.util.GeneralAnnotationStorage
net.maizegenetics.util.net.maizegenetics.util.Graph
net.maizegenetics.util.net.maizegenetics.util.GraphBuilder
net.maizegenetics.util.net.maizegenetics.util.GraphUtils
net.maizegenetics.util.net.maizegenetics.util.HDF5TableReport
net.maizegenetics.util.net.maizegenetics.util.HDF5Utils
net.maizegenetics.util.net.maizegenetics.util.InputSource
net.maizegenetics.util.net.maizegenetics.util.LoggingUtils
net.maizegenetics.util.net.maizegenetics.util.MultiMemberGZIPInputStream
net.maizegenetics.util.net.maizegenetics.util.OpenBitSet
net.maizegenetics.util.net.maizegenetics.util.ProgressListener
net.maizegenetics.util.net.maizegenetics.util.SMTPClient
net.maizegenetics.util.net.maizegenetics.util.SimpleTableReport
net.maizegenetics.util.net.maizegenetics.util.Sizeof
net.maizegenetics.util.net.maizegenetics.util.StringNumberComparator
net.maizegenetics.util.net.maizegenetics.util.SuperByteMatrix
net.maizegenetics.util.net.maizegenetics.util.SuperByteMatrixBuilder
net.maizegenetics.util.net.maizegenetics.util.SuperByteMatrixMultiple
net.maizegenetics.util.net.maizegenetics.util.SuperByteMatrixSingle
net.maizegenetics.util.net.maizegenetics.util.SuperByteMatrixSingleValue
net.maizegenetics.util.net.maizegenetics.util.SuperByteMatrixTranspose
net.maizegenetics.util.net.maizegenetics.util.TableReport
net.maizegenetics.util.net.maizegenetics.util.TableReportBuilder
net.maizegenetics.util.net.maizegenetics.util.TableReportUtils
net.maizegenetics.util.net.maizegenetics.util.Tassel5HDF5Constants
net.maizegenetics.util.net.maizegenetics.util.Tuple
net.maizegenetics.util.net.maizegenetics.util.UndirectedGraph
net.maizegenetics.util.net.maizegenetics.util.UnmodifiableBitSet
net.maizegenetics.util.net.maizegenetics.util.Utils
net.maizegenetics.util.db
net.maizegenetics.util.db.net.maizegenetics.util.db.DBTuple
net.maizegenetics.util.db.net.maizegenetics.util.db.DataAccessException
net.maizegenetics.util.db.net.maizegenetics.util.db.DefaultDBTuple
net.maizegenetics.util.db.net.maizegenetics.util.db.LambdaTuplesContext
net.maizegenetics.util.db.net.maizegenetics.util.db.Pair
net.maizegenetics.util.db.net.maizegenetics.util.db.ResultSetIterator
net.maizegenetics.util.db.net.maizegenetics.util.db.ResultSetProcessor
net.maizegenetics.util.db.net.maizegenetics.util.db.SQL
net.maizegenetics.util.db.net.maizegenetics.util.db.SQLAction
net.maizegenetics.util.db.net.maizegenetics.util.db.Transformations
net.maizegenetics.util.db.net.maizegenetics.util.db.TransformerService
net.maizegenetics.util.db.net.maizegenetics.util.db.TypeTransformer
net.maizegenetics.util.db.net.maizegenetics.util.db.package-info
net.maizegenetics.util
net.maizegenetics.util.net.maizegenetics.util.package-info




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