Hierarchy For Package com.milaboratory.core.alignment

Package Hierarchies:

• All Packages

Class Hierarchy

• java.lang.Object
  • com.milaboratory.core.alignment.AbstractAlignmentScoring<S> (implements com.milaboratory.core.alignment.AlignmentScoring<S>)
    • com.milaboratory.core.alignment.AffineGapAlignmentScoring<S> (implements java.io.Serializable)
    • com.milaboratory.core.alignment.LinearGapAlignmentScoring<S> (implements java.io.Serializable)
  • com.milaboratory.core.alignment.AffineGapAlignmentScoring.SerializationObject (implements java.io.Serializable)
  • com.milaboratory.core.alignment.Aligner
  • com.milaboratory.core.alignment.AlignerCustom
  • com.milaboratory.core.alignment.AlignerCustom.AffineMatrixCache (implements com.milaboratory.core.alignment.AlignerCustom.MatrixCache)
  • com.milaboratory.core.alignment.AlignerCustom.LinearMatrixCache (implements com.milaboratory.core.alignment.AlignerCustom.MatrixCache)
  • com.milaboratory.core.alignment.AlignerCustom.Matrix
  • com.milaboratory.core.alignment.Alignment<S> (implements java.io.Serializable)
  • com.milaboratory.core.alignment.AlignmentCache
  • com.milaboratory.core.alignment.AlignmentHelper (implements java.io.Serializable)
  • com.milaboratory.core.alignment.AlignmentIteratorForward<S> (implements com.milaboratory.core.alignment.AlignmentIterator<S>)
  • com.milaboratory.core.alignment.AlignmentIteratorReverse<S> (implements com.milaboratory.core.alignment.AlignmentIterator<S>)
  • com.milaboratory.core.alignment.AlignmentTrimmer
  • com.milaboratory.core.alignment.AlignmentUtils
  • com.milaboratory.core.alignment.BandedAffineAligner
  • com.milaboratory.core.alignment.BandedAffineAligner.MatrixCache
  • com.milaboratory.core.alignment.BandedAligner
  • com.milaboratory.core.alignment.BandedAlignerParameters<S> (implements java.io.Serializable)
  • com.milaboratory.core.alignment.BandedLinearAligner
  • com.milaboratory.core.alignment.BandedMatrix (implements java.io.Serializable)
  • com.milaboratory.core.alignment.BandedSemiLocalResult (implements java.io.Serializable)
  • com.milaboratory.core.alignment.CachedIntArray (implements java.io.Serializable)
  • com.milaboratory.core.alignment.LinearGapAlignmentScoring.SerializationObject (implements java.io.Serializable)
  • com.milaboratory.core.alignment.MultiAlignmentHelper
  • com.milaboratory.core.alignment.MultiAlignmentHelper.Settings
  • com.milaboratory.core.alignment.ScoringUtils

Interface Hierarchy

• com.milaboratory.core.alignment.AlignerCustom.MatrixCache
• com.milaboratory.core.alignment.AlignmentIterator<S>
• java.io.Serializable
  • com.milaboratory.core.alignment.AlignmentScoring<S>

Enum Hierarchy

• java.lang.Object
  • java.lang.Enum<E> (implements java.lang.Comparable<T>, java.io.Serializable)
    • com.milaboratory.core.alignment.BLASTMatrix (implements java.io.Serializable)