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Hierarchy For Package org.biojava.bio.seq
Package Hierarchies:
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Class Hierarchy
class java.lang.Object
class org.biojava.utils.
AbstractChangeable
(implements org.biojava.utils.
Changeable
)
class org.biojava.bio.seq.
AbstractFeatureHolder
(implements org.biojava.bio.seq.
FeatureHolder
)
class org.biojava.bio.seq.
MergeFeatureHolder
class org.biojava.bio.seq.
ProjectedFeatureHolder
(implements org.biojava.bio.seq.
FeatureHolder
, org.biojava.bio.seq.projection.
ProjectionContext
)
class org.biojava.bio.seq.
SimpleFeatureHolder
class org.biojava.bio.symbol.
AbstractSymbolList
(implements org.biojava.bio.symbol.
SymbolList
)
class org.biojava.bio.symbol.
SimpleGappedSymbolList
(implements org.biojava.bio.symbol.
GappedSymbolList
, java.io.Serializable)
class org.biojava.bio.seq.
SimpleGappedSequence
(implements org.biojava.bio.seq.
GappedSequence
)
class org.biojava.bio.seq.
DummySequence
(implements org.biojava.bio.seq.
Sequence
)
class org.biojava.bio.seq.
FeatureTypes.RepositoryImpl
(implements org.biojava.bio.seq.
FeatureTypes.Repository
)
class org.biojava.bio.seq.
LazyFeatureHolder
(implements org.biojava.bio.seq.
FeatureHolder
)
class org.biojava.bio.seq.
SimpleAssembly
(implements org.biojava.bio.seq.
RealizingFeatureHolder
, org.biojava.bio.seq.
Sequence
)
class org.biojava.bio.seq.
DNATools
class org.biojava.bio.seq.
Feature.ByLocationComparator
(implements java.util.Comparator)
class org.biojava.bio.seq.
Feature.Template
(implements java.io.Serializable)
class org.biojava.bio.seq.
StrandedFeature.Template
class org.biojava.bio.seq.
ComponentFeature.Template
class org.biojava.bio.seq.
FramedFeature.Template
class org.biojava.bio.seq.
RemoteFeature.Template
class org.biojava.bio.seq.
FeatureFilter.And
(implements org.biojava.bio.seq.
FeatureFilter
)
class org.biojava.bio.seq.
FeatureFilter.ByAncestor
(implements org.biojava.bio.seq.
OptimizableFilter
, org.biojava.bio.seq.Up)
class org.biojava.bio.seq.
FeatureFilter.ByAnnotationType
(implements org.biojava.bio.seq.
OptimizableFilter
)
class org.biojava.bio.seq.
FeatureFilter.AnnotationContains
class org.biojava.bio.seq.
FeatureFilter.ByAnnotation
class org.biojava.bio.seq.
FeatureFilter.HasAnnotation
class org.biojava.bio.seq.
FeatureFilter.ByChild
(implements org.biojava.bio.seq.Down, org.biojava.bio.seq.
OptimizableFilter
)
class org.biojava.bio.seq.
FeatureFilter.ByClass
(implements org.biojava.bio.seq.
OptimizableFilter
)
class org.biojava.bio.seq.
FeatureFilter.ByComponentName
(implements org.biojava.bio.seq.
OptimizableFilter
)
class org.biojava.bio.seq.
FeatureFilter.ByDescendant
(implements org.biojava.bio.seq.Down, org.biojava.bio.seq.
OptimizableFilter
)
class org.biojava.bio.seq.
FeatureFilter.ByFeature
(implements org.biojava.bio.seq.
OptimizableFilter
)
class org.biojava.bio.seq.
FeatureFilter.ByPairwiseScore
(implements org.biojava.bio.seq.
OptimizableFilter
)
class org.biojava.bio.seq.
FeatureFilter.ByParent
(implements org.biojava.bio.seq.
OptimizableFilter
, org.biojava.bio.seq.Up)
class org.biojava.bio.seq.
FeatureFilter.BySequenceName
(implements org.biojava.bio.seq.
OptimizableFilter
)
class org.biojava.bio.seq.
FeatureFilter.BySource
(implements org.biojava.bio.seq.
OptimizableFilter
)
class org.biojava.bio.seq.
FeatureFilter.ByType
(implements org.biojava.bio.seq.
OptimizableFilter
)
class org.biojava.bio.seq.
FeatureFilter.ContainedByLocation
(implements org.biojava.bio.seq.
OptimizableFilter
)
class org.biojava.bio.seq.
FeatureFilter.FrameFilter
(implements org.biojava.bio.seq.
OptimizableFilter
)
class org.biojava.bio.seq.
FeatureFilter.Not
(implements org.biojava.bio.seq.
FeatureFilter
)
class org.biojava.bio.seq.
FeatureFilter.OnlyChildren
(implements org.biojava.bio.seq.ByHierarchy, org.biojava.bio.seq.
OptimizableFilter
)
class org.biojava.bio.seq.
FeatureFilter.OnlyDescendants
(implements org.biojava.bio.seq.ByHierarchy, org.biojava.bio.seq.
OptimizableFilter
)
class org.biojava.bio.seq.
FeatureFilter.Or
(implements org.biojava.bio.seq.
FeatureFilter
)
class org.biojava.bio.seq.
FeatureFilter.OverlapsLocation
(implements org.biojava.bio.seq.
OptimizableFilter
)
class org.biojava.bio.seq.
FeatureFilter.ShadowContainedByLocation
(implements org.biojava.bio.seq.
OptimizableFilter
)
class org.biojava.bio.seq.
FeatureFilter.ShadowOverlapsLocation
(implements org.biojava.bio.seq.
OptimizableFilter
)
class org.biojava.bio.seq.
FeatureFilter.StrandFilter
(implements org.biojava.bio.seq.
OptimizableFilter
)
class org.biojava.bio.seq.
FeatureTypes
class org.biojava.bio.seq.
FilterUtils
class org.biojava.bio.seq.
FilterUtils.DelegatingTransformer
(implements org.biojava.bio.seq.
FilterUtils.FilterTransformer
)
class org.biojava.bio.seq.
FramedFeature.ReadingFrame
(implements org.biojava.bio.seq.
Frame
, java.io.Serializable)
class org.biojava.bio.seq.
GeneticCodes
class org.biojava.bio.seq.
NucleotideTools
class org.biojava.bio.seq.
ProteinTools
class org.biojava.bio.seq.
RemoteFeature.Region
class org.biojava.bio.seq.
RNATools
class org.biojava.bio.seq.
SequenceTools
class org.biojava.bio.seq.
SimpleFeatureRealizer
(implements org.biojava.bio.seq.
FeatureRealizer
, java.io.Serializable)
class org.biojava.bio.seq.
StrandedFeature.Strand
(implements java.io.Serializable)
class org.biojava.bio.seq.
StrandParser
class org.biojava.bio.seq.
SubSequence
(implements org.biojava.bio.seq.
Sequence
)
class org.biojava.utils.
Unchangeable
(implements org.biojava.utils.
Changeable
)
class org.biojava.bio.seq.
FeatureHolder.EmptyFeatureHolder
(implements org.biojava.bio.seq.
FeatureHolder
)
class org.biojava.bio.seq.
ViewSequence
(implements org.biojava.bio.seq.
RealizingFeatureHolder
, org.biojava.bio.seq.
Sequence
, java.io.Serializable)
class org.biojava.bio.seq.
CircularView
Interface Hierarchy
interface org.biojava.utils.
Changeable
interface org.biojava.bio.
Annotatable
interface org.biojava.bio.seq.
Feature
(also extends org.biojava.bio.seq.
FeatureHolder
)
interface org.biojava.bio.seq.
StrandedFeature
interface org.biojava.bio.seq.
ComponentFeature
interface org.biojava.bio.seq.
FramedFeature
interface org.biojava.bio.seq.
RemoteFeature
interface org.biojava.bio.seq.
FeatureTypes.Repository
interface org.biojava.bio.seq.
FeatureTypes.Type
interface org.biojava.bio.seq.
Sequence
(also extends org.biojava.bio.seq.
FeatureHolder
, org.biojava.bio.symbol.
SymbolList
)
interface org.biojava.bio.seq.
GappedSequence
(also extends org.biojava.bio.symbol.
GappedSymbolList
)
interface org.biojava.bio.seq.
FeatureHolder
interface org.biojava.bio.seq.
Feature
(also extends org.biojava.bio.
Annotatable
)
interface org.biojava.bio.seq.
StrandedFeature
interface org.biojava.bio.seq.
ComponentFeature
interface org.biojava.bio.seq.
FramedFeature
interface org.biojava.bio.seq.
RemoteFeature
interface org.biojava.bio.seq.
RealizingFeatureHolder
interface org.biojava.bio.seq.
Sequence
(also extends org.biojava.bio.
Annotatable
, org.biojava.bio.symbol.
SymbolList
)
interface org.biojava.bio.seq.
GappedSequence
(also extends org.biojava.bio.symbol.
GappedSymbolList
)
interface org.biojava.bio.symbol.
SymbolList
interface org.biojava.bio.symbol.
GappedSymbolList
interface org.biojava.bio.seq.
GappedSequence
(also extends org.biojava.bio.seq.
Sequence
)
interface org.biojava.bio.seq.
Sequence
(also extends org.biojava.bio.
Annotatable
, org.biojava.bio.seq.
FeatureHolder
)
interface org.biojava.bio.seq.
GappedSequence
(also extends org.biojava.bio.symbol.
GappedSymbolList
)
interface org.biojava.bio.seq.
FeatureRealizer
interface org.biojava.bio.seq.
FilterUtils.FilterTransformer
interface org.biojava.bio.seq.
Frame
interface org.biojava.bio.seq.
RemoteFeature.Resolver
interface org.biojava.bio.seq.
SequenceAnnotator
interface org.biojava.bio.seq.
SequenceFactory
interface org.biojava.bio.seq.
SequenceIterator
interface java.io.Serializable
interface org.biojava.bio.seq.
FeatureFilter
interface org.biojava.bio.seq.
OptimizableFilter
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