Package | Description |
---|---|
org.biojava.bio.gui.sequence |
Graphical displays of biological sequences and associated annotations.
|
org.biojava.bio.seq |
Classes and interfaces for defining biological sequences and informatics
objects.
|
Modifier and Type | Method and Description |
---|---|
void |
AbstractBeadRenderer.removeDelegateRenderer(OptimizableFilter filter)
removeDelegateRenderer removes any association
of the given OptimizableFilter with a
BeadFeatureRenderer . |
void |
RectangularImapRenderer.setDelegateRenderer(OptimizableFilter filter,
BeadFeatureRenderer renderer)
setDelegateRenderer for the specified filter. |
void |
BeadFeatureRenderer.setDelegateRenderer(OptimizableFilter filter,
BeadFeatureRenderer renderer)
setDelegateRenderer associates an
OptimizableFilter with a
BeadFeatureRenderer . |
void |
AbstractBeadRenderer.setDelegateRenderer(OptimizableFilter filter,
BeadFeatureRenderer renderer)
setDelegateRenderer associates an
OptimizableFilter with a
BeadFeatureRenderer . |
Modifier and Type | Class and Description |
---|---|
static class |
FeatureFilter.AnnotationContains
Retrieve features that contain a given annotation, and that the set of values
contains the value given.
|
static class |
FeatureFilter.ByAncestor
Filter by applying a nested
FeatureFilter to all
ancestor features. |
static class |
FeatureFilter.ByAnnotation
Retrieve features that contain a given annotation with a given value.
|
static class |
FeatureFilter.ByAnnotationType
A filter that returns all features that have an annotation bundle that is of a given
annotation type.
|
static class |
FeatureFilter.ByChild
Filter by applying a nested
FeatureFilter to the
child features. |
static class |
FeatureFilter.ByClass
Filter which accepts only those filters which are an instance
of a specific Java class
|
static class |
FeatureFilter.ByComponentName
Accepts features which are ComponentFeatures and have a
componentSequenceName
property of the specified value. |
static class |
FeatureFilter.ByDescendant
Filter by applying a nested
FeatureFilter to all
descendant features. |
static class |
FeatureFilter.ByFeature
Accept only features which are equal to the specified feature
|
static class |
FeatureFilter.ByPairwiseScore
ByPairwiseScore is used to filter
SimilarityPairFeature s by their score. |
static class |
FeatureFilter.ByParent
Filter by applying a nested
FeatureFilter to the
parent feature. |
static class |
FeatureFilter.BySequenceName
Accept features that reside on a sequence with a particular name.
|
static class |
FeatureFilter.BySource
Construct one of these to filter features by source.
|
static class |
FeatureFilter.ByType
Construct one of these to filter features by type.
|
static class |
FeatureFilter.ContainedByLocation
A filter that returns all features contained within a location.
|
static class |
FeatureFilter.FrameFilter
Accept features with a given reading frame.
|
static class |
FeatureFilter.HasAnnotation
Retrieve features that contain a given annotation with any value.
|
static class |
FeatureFilter.OnlyChildren
Accepts features where all immediate children meet the supplied filter.
|
static class |
FeatureFilter.OnlyDescendants
Accepts features where all descendants meet the supplied filter.
|
static class |
FeatureFilter.OverlapsLocation
A filter that returns all features overlapping a location.
|
static class |
FeatureFilter.ShadowContainedByLocation
A filter that accepts all features whose shadow is contained by a specified
Location . |
static class |
FeatureFilter.ShadowOverlapsLocation
A filter that accepts all features whose shadow overlaps a specified
Location . |
static class |
FeatureFilter.StrandFilter
Accept features with a given strandedness.
|
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