net.maizegenetics.analysis.data

Classes

• AddReferenceAlleleToHDF5Plugin
• AddReferenceToGenotypePlugin
• AdjustPhasingPlugin
• BuildUnfinishedHDF5GenotypesPlugin
• CombineDataSetsPlugin
• ConvertAlignmentCoordinatesPlugin
• CountAssociationsPlugin
• CountAssociationsPluginKt
• CreateHybridGenotypesPlugin
• ExportMultiplePlugin
• ExportPlugin
• ExtractHapmapSubsetPlugin
• FeatureListToPositionsPlugin
• FileLoadPlugin
• FindInversionsPlugin
• GenomeAnnosDBQueryToPositionListPlugin
• GenosToABHPlugin
• GenotypeSummaryPlugin
• GenotypeToAdditiveValuesPlugin
• GetPositionListPlugin
• GetTaxaListPlugin
• HDF5SummaryPlugin
• HetsToUnknownPlugin
• IdentityRecognitionPlugin
• IndelsToUnknownPlugin
• IntersectionAlignmentPlugin
• KmerCountingPlugin
• KmerCountingPluginKt
• LIXPlugin
• LowLevelCopyOfHDF5
• MaskGenotypePlugin
• MeanR2FromLDPlugin
• MemoryUsagePlugin
• MergeAlignmentsSameSitesPlugin
• MergeGenotypeTablesPlugin
• MergeGenotypeTablesPluginV2
• MergeHDF5GenotypesSameSitesPlugin
• MergeRenameDeleteTaxaPlugin
• MigrateHDF5FromT4T5
• PassThroughPlugin
• PlinkLoadPlugin
• PrincipalComponentsPlugin
• ProjectPcsAndRunModelSelectionPlugin
• ProjectionLoadPlugin
• SeparatePlugin
• SetLowDepthGenosToMissingPlugin
• SortGenotypeFilePlugin
• SortTaxaAlphabeticallyPlugin
• SplitHDF5ByChromosomePlugin
• SubtractGenotypesPlugin
• SynonymizerPlugin
• ThinSitesByPositionPlugin
• UnionAlignmentPlugin