Hierarchy For All Packages

Package Hierarchies:

• cli,
• exceptions,
• main,
• model,
• op,
• task,
• util

Class Hierarchy

• java.lang.Object
  • model.Attributes
    • model.Contig
    • model.Feature
    • model.Sample
    • model.SequenceType
      • model.Allele
      • model.Proteoform
    • model.Variant
  • util.Bio
  • cli.CLIBuild (implements cli.CLI)
  • cli.CLIExpand (implements cli.CLI)
  • cli.CLIProfile (implements cli.CLI)
  • cli.CLISequence (implements cli.CLI)
  • cli.CLIView (implements cli.CLI)
  • util.Constants
  • util.Constants.AttributesKeys
  • task.ExecutorBuild
  • task.ExecutorExpand
  • task.ExecutorProfile
  • task.ExecutorSequence
  • task.ExecutorView
  • op.FeatureLoader
  • util.IO
  • util.Logging
  • main.Musial
  • op.NucleotideSequenceGenerator (implements op.SequenceGenerator)
    • op.AminoacidSequenceGenerator
  • util.OS
  • model.Storage
  • op.StorageFactory
  • op.StorageIO
  • op.StorageTable
  • op.StorageUpdater
  • java.lang.Throwable (implements java.io.Serializable)
    • java.lang.Exception
      • exceptions.MusialException
  • op.VariantAnnotator
  • model.VariantCall.VariantCallSerializer (implements org.ehcache.spi.serialization.Serializer<T>)
  • op.VCFProcessor (implements java.io.Closeable)

Interface Hierarchy

• cli.CLI
• op.SequenceGenerator

Enum Class Hierarchy

• java.lang.Object
  • java.lang.Enum<E> (implements java.lang.Comparable<T>, java.lang.constant.Constable, java.io.Serializable)
    • cli.CLIProfile.Content
    • cli.CLISequence.Content
    • cli.CLISequence.Split
    • cli.CLIView.Content
    • main.MusialTask
    • model.Variant.Type
    • model.VariantCall.Flag

Record Class Hierarchy

• java.lang.Object
  • java.lang.Record
    • util.Bio.ReferenceContext
    • model.Feature.SubFeature
    • model.Storage.Parameters
    • model.Variant.Stub
    • model.VariantCall
    • model.VariantCall.CallAlternative
    • op.VCFProcessor.UpstreamDeletion