Hierarchy For Package net.maizegenetics.analysis.gbs

Package Hierarchies:

• All Packages

Class Hierarchy

• net.maizegenetics.plugindef.AbstractPlugin (implements net.maizegenetics.plugindef.Plugin)
  • net.maizegenetics.analysis.gbs.AnnotateTOPMwSAMPlugin
  • net.maizegenetics.analysis.gbs.BinaryToTextPlugin
  • net.maizegenetics.analysis.gbs.CompareGenosBetweenHapMapFilesPlugin
  • net.maizegenetics.analysis.gbs.ContigPETagCountPlugin
  • net.maizegenetics.analysis.gbs.DiscoverySNPCallerPlugin
  • net.maizegenetics.analysis.gbs.FastqToPETagCountPlugin
  • net.maizegenetics.analysis.gbs.FastqToTBTPlugin
  • net.maizegenetics.analysis.gbs.FastqToTagCountPlugin
  • net.maizegenetics.analysis.gbs.KeepSpecifiedReadsinFastqPlugin
  • net.maizegenetics.analysis.gbs.KeepSpecifiedSitesInTOPMPlugin
  • net.maizegenetics.analysis.gbs.KmerToTBTPlugin
  • net.maizegenetics.analysis.gbs.KmerToTagCountPlugin
  • net.maizegenetics.analysis.gbs.MergeDuplicateSNPsPlugin
  • net.maizegenetics.analysis.gbs.MergeMultipleTOPMPlugin
  • net.maizegenetics.analysis.gbs.MergeMultipleTagCountPlugin
  • net.maizegenetics.analysis.gbs.MergePETagCountPlugin
  • net.maizegenetics.analysis.gbs.MergeTagsByTaxaFilesByRowPlugin
  • net.maizegenetics.analysis.gbs.MergeTagsByTaxaFilesPlugin
  • net.maizegenetics.analysis.gbs.ModifyTBTHDF5Plugin
  • net.maizegenetics.analysis.gbs.ProductionPipeline
  • net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin
  • net.maizegenetics.analysis.gbs.QseqToPETagCountPlugin
  • net.maizegenetics.analysis.gbs.QseqToTBTPlugin
  • net.maizegenetics.analysis.gbs.QseqToTagCountPlugin
  • net.maizegenetics.analysis.gbs.SAMConverterPlugin
  • net.maizegenetics.analysis.gbs.SAMWGMapConverterPlugin
  • net.maizegenetics.analysis.gbs.SeqToTBTHDF5Plugin
  • net.maizegenetics.analysis.gbs.TOPMSummaryPlugin
  • net.maizegenetics.analysis.gbs.TagAgainstAnchorPlugin
  • net.maizegenetics.analysis.gbs.TagCountToFastqPlugin
  • net.maizegenetics.analysis.gbs.TextToBinaryPlugin
  • net.maizegenetics.analysis.gbs.UTagCountToTagPairPlugin
  • net.maizegenetics.analysis.gbs.UTagPairToTOPMPlugin
• net.maizegenetics.analysis.gbs.TagBlockPosition
• net.maizegenetics.analysis.gbs.ProductionPipelineMain
• net.maizegenetics.analysis.gbs.AnnotateTOPM
• net.maizegenetics.analysis.gbs.TagMatchFinder
• net.maizegenetics.analysis.gbs.Clusters
• net.maizegenetics.analysis.gbs.TerryPipelines
• net.maizegenetics.analysis.gbs.UNetworkFilter
• net.maizegenetics.analysis.gbs.ShortReadBarcodeResult
• net.maizegenetics.analysis.gbs.SNPLogging
• net.maizegenetics.analysis.gbs.SmithWaterman
• net.maizegenetics.analysis.gbs.TagAgainstAnchor
• net.maizegenetics.analysis.gbs.PEReadBarcodeResult
• net.maizegenetics.analysis.gbs.UTagPairFinder
• net.maizegenetics.analysis.gbs.ReadBarcodeResult
• net.maizegenetics.analysis.gbs.SimpleGenotypeSBit
• net.maizegenetics.analysis.gbs.TagAgainstAnchorHypothesis
• net.maizegenetics.analysis.gbs.ParseBarcodeRead
  • net.maizegenetics.analysis.gbs.PEParseBarcodeRead
• net.maizegenetics.analysis.gbs.Barcode
• net.maizegenetics.analysis.gbs.PolymorphismFinder

Enum Hierarchy

• net.maizegenetics.analysis.gbs.BinaryToTextPlugin.FILE_TYPES
• net.maizegenetics.analysis.gbs.CompareGenosBetweenHapMapFilesPlugin.SiteCompareType
• net.maizegenetics.analysis.gbs.AnnotateTOPM.EvidenceType