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Packages that use FeatureFilter | |
org.biojava.bio.gui.sequence | Graphical displays of biological sequences and associated annotations. |
org.biojava.bio.program.das | Development client for the Distributed Annotation System. |
org.biojava.bio.program.gff | GFF manipulation. |
org.biojava.bio.seq | Classes and interfaces for defining biological sequences and informatics objects. |
org.biojava.bio.seq.db | Collections of biological sequence data. |
org.biojava.bio.seq.db.biosql | General purpose Sequence storage in a relational database. |
org.biojava.bio.seq.distributed | Sequences and SequenceDBs which are composed from data taken from a number of data sources. |
org.biojava.bio.seq.impl | Standard in-memory implementations of Sequence and
Feature . |
org.biojava.bio.seq.io.filterxml | Tools for reading and writing an XML representation of BioJava's FeatureFilter language. |
org.biojava.bio.seq.projection | Code for projecting Feature objects into alternate coordinate systems. |
Uses of FeatureFilter in org.biojava.bio.gui.sequence |
Fields in org.biojava.bio.gui.sequence declared as FeatureFilter | |
protected FeatureFilter |
PairwiseFilteringRenderer.filter
filter is the filter applied to both
FeatureHolder s. |
protected FeatureFilter |
FilteringRenderer.filter
|
Methods in org.biojava.bio.gui.sequence that return FeatureFilter | |
FeatureFilter |
PairwiseFilteringRenderer.getFilter()
getFilter returns the current filter. |
FeatureFilter |
FilteringRenderer.getFilter()
|
Methods in org.biojava.bio.gui.sequence with parameters of type FeatureFilter | |
protected java.util.List |
BumpedRenderer.doLayer(SequenceRenderContext src,
FeatureFilter filt)
|
void |
PairwiseFilteringRenderer.setFilter(FeatureFilter filter)
setFilter sets the filter. |
void |
FilteringRenderer.setFilter(FeatureFilter filter)
|
Constructors in org.biojava.bio.gui.sequence with parameters of type FeatureFilter | |
PairwiseFilteringRenderer(PairwiseSequenceRenderer renderer,
FeatureFilter filter,
boolean recurse)
Creates a new PairwiseFilteringRenderer . |
|
FilteringRenderer(SequenceRenderer renderer,
FeatureFilter filter,
boolean recurse)
|
Uses of FeatureFilter in org.biojava.bio.program.das |
Methods in org.biojava.bio.program.das that return FeatureFilter | |
FeatureFilter |
DASSequence.getSchema()
|
Methods in org.biojava.bio.program.das with parameters of type FeatureFilter | |
FeatureHolder |
DASSequenceDB.filter(FeatureFilter ff)
|
FeatureHolder |
DASSequence.filter(FeatureFilter ff)
|
FeatureHolder |
DASSequence.filter(FeatureFilter ff,
boolean recurse)
|
Uses of FeatureFilter in org.biojava.bio.program.gff |
Methods in org.biojava.bio.program.gff that return FeatureFilter | |
FeatureFilter |
SequencesAsGFF.getFeatureFilter()
Return the current FeatureFilter. |
Methods in org.biojava.bio.program.gff with parameters of type FeatureFilter | |
void |
SequencesAsGFF.setFeatureFilter(FeatureFilter filter)
Replace the current FeatureFilter with filter. |
Uses of FeatureFilter in org.biojava.bio.seq |
Subinterfaces of FeatureFilter in org.biojava.bio.seq | |
interface |
OptimizableFilter
The interface for filters that can potentialy optimize themselves, and compare themselves with other filters. |
Classes in org.biojava.bio.seq that implement FeatureFilter | |
static class |
FeatureFilter.And
A filter that returns all features accepted by both child filter. |
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.Not
A filter that returns all features not accepted by a child filter. |
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.Or
A filter that returns all features accepted by at least one child 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. |
Fields in org.biojava.bio.seq declared as FeatureFilter | |
static FeatureFilter |
FeatureFilter.all
All features are selected by this filter. |
static FeatureFilter |
FeatureFilter.none
No features are selected by this filter. |
static FeatureFilter |
FeatureFilter.top_level
A filter which accepts only top-level Features. |
static FeatureFilter |
FeatureFilter.leaf
A filter which accepts features with no children |
Methods in org.biojava.bio.seq that return FeatureFilter | |
FeatureFilter |
FeatureFilter.Not.getChild()
|
FeatureFilter |
FeatureFilter.And.getChild1()
|
FeatureFilter |
FeatureFilter.And.getChild2()
|
FeatureFilter |
FeatureFilter.Or.getChild1()
|
FeatureFilter |
FeatureFilter.Or.getChild2()
|
FeatureFilter |
FeatureFilter.ByParent.getFilter()
|
FeatureFilter |
FeatureFilter.ByAncestor.getFilter()
|
FeatureFilter |
FeatureFilter.OnlyChildren.getFilter()
|
FeatureFilter |
FeatureFilter.OnlyDescendants.getFilter()
|
FeatureFilter |
FeatureFilter.ByChild.getFilter()
|
FeatureFilter |
FeatureFilter.ByDescendant.getFilter()
|
FeatureFilter |
SubSequence.getSchema()
|
FeatureFilter |
SimpleGappedSequence.getSchema()
|
FeatureFilter |
ViewSequence.getSchema()
|
FeatureFilter |
FeatureHolder.getSchema()
Return a schema-filter for this FeatureHolder . |
FeatureFilter |
FeatureHolder.EmptyFeatureHolder.getSchema()
|
static FeatureFilter |
FilterUtils.byType(java.lang.String type)
|
static FeatureFilter |
FilterUtils.bySource(java.lang.String source)
|
static FeatureFilter |
FilterUtils.byClass(java.lang.Class clazz)
|
static FeatureFilter |
FilterUtils.containedByLocation(Location loc)
|
static FeatureFilter |
FilterUtils.overlapsLocation(Location loc)
|
static FeatureFilter |
FilterUtils.bySequenceName(java.lang.String name)
|
static FeatureFilter |
FilterUtils.not(FeatureFilter filter)
|
static FeatureFilter |
FilterUtils.and(FeatureFilter c1,
FeatureFilter c2)
|
static FeatureFilter |
FilterUtils.and(FeatureFilter[] filters)
|
static FeatureFilter |
FilterUtils.or(FeatureFilter c1,
FeatureFilter c2)
|
static FeatureFilter |
FilterUtils.or(FeatureFilter[] filters)
|
static FeatureFilter |
FilterUtils.byAnnotationType(AnnotationType type)
|
static FeatureFilter |
FilterUtils.byAnnotation(java.lang.Object key,
java.lang.Object value)
|
static FeatureFilter |
FilterUtils.byAnnotationType(java.lang.Object key,
java.lang.Class valClass)
|
static FeatureFilter |
FilterUtils.hasAnnotation(java.lang.Object key)
|
static FeatureFilter |
FilterUtils.byStrand(StrandedFeature.Strand strand)
|
static FeatureFilter |
FilterUtils.byParent(FeatureFilter parentFilter)
|
static FeatureFilter |
FilterUtils.byAncestor(FeatureFilter ancestorFilter)
|
static FeatureFilter |
FilterUtils.byChild(FeatureFilter childFilter)
|
static FeatureFilter |
FilterUtils.byDescendant(FeatureFilter descFilter)
|
static FeatureFilter |
FilterUtils.byFrame(FramedFeature.ReadingFrame frame)
|
static FeatureFilter |
FilterUtils.byPairwiseScore(double minScore,
double maxScore)
|
static FeatureFilter |
FilterUtils.byComponentName(java.lang.String compName)
|
static FeatureFilter |
FilterUtils.topLevel()
|
static FeatureFilter |
FilterUtils.leaf()
|
static FeatureFilter |
FilterUtils.all()
|
static FeatureFilter |
FilterUtils.none()
|
static FeatureFilter |
FilterUtils.optimize(FeatureFilter filter)
|
static FeatureFilter |
FilterUtils.transformFilter(FeatureFilter ff,
FilterUtils.FilterTransformer trans)
This is a general framework method for transforming one filter into another. |
FeatureFilter |
FilterUtils.FilterTransformer.transform(FeatureFilter filt)
Transform a filter, or return null if it can not be transformed. |
FeatureFilter |
FilterUtils.DelegatingTransformer.transform(FeatureFilter ff)
|
FeatureFilter |
DummySequence.getSchema()
|
FeatureFilter |
MergeFeatureHolder.getSchema()
|
FeatureFilter |
LazyFeatureHolder.getSchema()
|
FeatureFilter |
SimpleFeatureHolder.getSchema()
|
FeatureFilter |
SimpleAssembly.getSchema()
|
FeatureFilter |
ProjectedFeatureHolder.getSchema()
|
protected FeatureFilter |
ProjectedFeatureHolder.untransformFilter(FeatureFilter ff)
Called to transform a FeatureFilter applying to our projections into a corresponding filter on the parent FeatureHolder. |
protected FeatureFilter |
ProjectedFeatureHolder.transformFilter(FeatureFilter ff)
Called to transform a FeatureFilter applying to our parent FeatureHolder into the coordinate system of our parent. |
FeatureFilter |
ProjectedFeatureHolder.getSchema(Feature f)
|
FeatureFilter |
FeatureTypes.Type.getSchema()
Get the schema for this type. |
Methods in org.biojava.bio.seq with parameters of type FeatureFilter | |
boolean |
FeatureFilter.ByType.isProperSubset(FeatureFilter sup)
|
boolean |
FeatureFilter.ByType.isDisjoint(FeatureFilter filt)
|
boolean |
FeatureFilter.BySource.isProperSubset(FeatureFilter sup)
|
boolean |
FeatureFilter.BySource.isDisjoint(FeatureFilter filt)
|
boolean |
FeatureFilter.ByClass.isProperSubset(FeatureFilter sup)
|
boolean |
FeatureFilter.ByClass.isDisjoint(FeatureFilter feat)
|
boolean |
FeatureFilter.StrandFilter.isProperSubset(FeatureFilter sup)
|
boolean |
FeatureFilter.StrandFilter.isDisjoint(FeatureFilter filt)
|
boolean |
FeatureFilter.BySequenceName.isProperSubset(FeatureFilter sup)
|
boolean |
FeatureFilter.BySequenceName.isDisjoint(FeatureFilter filt)
|
boolean |
FeatureFilter.ContainedByLocation.isProperSubset(FeatureFilter sup)
|
boolean |
FeatureFilter.ContainedByLocation.isDisjoint(FeatureFilter filt)
|
boolean |
FeatureFilter.OverlapsLocation.isProperSubset(FeatureFilter sup)
|
boolean |
FeatureFilter.OverlapsLocation.isDisjoint(FeatureFilter filt)
|
boolean |
FeatureFilter.ShadowOverlapsLocation.isProperSubset(FeatureFilter sup)
|
boolean |
FeatureFilter.ShadowOverlapsLocation.isDisjoint(FeatureFilter filt)
|
boolean |
FeatureFilter.ShadowContainedByLocation.isProperSubset(FeatureFilter sup)
|
boolean |
FeatureFilter.ShadowContainedByLocation.isDisjoint(FeatureFilter filt)
|
boolean |
FeatureFilter.ByAnnotationType.isDisjoint(FeatureFilter filter)
|
boolean |
FeatureFilter.ByAnnotationType.isProperSubset(FeatureFilter filter)
|
boolean |
FeatureFilter.ByParent.isProperSubset(FeatureFilter ff)
|
boolean |
FeatureFilter.ByParent.isDisjoint(FeatureFilter ff)
|
boolean |
FeatureFilter.ByAncestor.isProperSubset(FeatureFilter ff)
|
boolean |
FeatureFilter.ByAncestor.isDisjoint(FeatureFilter ff)
|
boolean |
FeatureFilter.OnlyChildren.isProperSubset(FeatureFilter ff)
|
boolean |
FeatureFilter.OnlyChildren.isDisjoint(FeatureFilter ff)
|
boolean |
FeatureFilter.OnlyDescendants.isProperSubset(FeatureFilter ff)
|
boolean |
FeatureFilter.OnlyDescendants.isDisjoint(FeatureFilter ff)
|
boolean |
FeatureFilter.ByChild.isProperSubset(FeatureFilter ff)
|
boolean |
FeatureFilter.ByChild.isDisjoint(FeatureFilter ff)
|
boolean |
FeatureFilter.ByDescendant.isProperSubset(FeatureFilter ff)
|
boolean |
FeatureFilter.ByDescendant.isDisjoint(FeatureFilter ff)
|
boolean |
FeatureFilter.FrameFilter.isProperSubset(FeatureFilter sup)
|
boolean |
FeatureFilter.FrameFilter.isDisjoint(FeatureFilter filt)
|
boolean |
FeatureFilter.ByPairwiseScore.isProperSubset(FeatureFilter sup)
|
boolean |
FeatureFilter.ByPairwiseScore.isDisjoint(FeatureFilter filt)
|
boolean |
FeatureFilter.ByComponentName.isProperSubset(FeatureFilter sup)
|
boolean |
FeatureFilter.ByComponentName.isDisjoint(FeatureFilter feat)
|
boolean |
FeatureFilter.ByFeature.isProperSubset(FeatureFilter ff)
|
boolean |
FeatureFilter.ByFeature.isDisjoint(FeatureFilter ff)
|
FeatureHolder |
SubSequence.filter(FeatureFilter ff,
boolean recurse)
|
FeatureHolder |
SubSequence.filter(FeatureFilter ff)
|
FeatureHolder |
SimpleGappedSequence.filter(FeatureFilter ff)
|
FeatureHolder |
SimpleGappedSequence.filter(FeatureFilter ff,
boolean recurse)
|
FeatureHolder |
ViewSequence.filter(FeatureFilter fc,
boolean recurse)
|
FeatureHolder |
ViewSequence.filter(FeatureFilter fc)
|
FeatureHolder |
FeatureHolder.filter(FeatureFilter fc,
boolean recurse)
Return a new FeatureHolder that contains all of the children of this one that passed the filter fc. |
FeatureHolder |
FeatureHolder.filter(FeatureFilter filter)
Query this set of features using a supplied FeatureFilter . |
FeatureHolder |
FeatureHolder.EmptyFeatureHolder.filter(FeatureFilter fc,
boolean recurse)
|
FeatureHolder |
FeatureHolder.EmptyFeatureHolder.filter(FeatureFilter fc)
|
FeatureHolder |
AbstractFeatureHolder.filter(FeatureFilter filter)
|
FeatureHolder |
AbstractFeatureHolder.filter(FeatureFilter ff,
boolean recurse)
|
static boolean |
FilterUtils.areProperSubset(FeatureFilter sub,
FeatureFilter sup)
Determines if the set of features matched by sub can be proven to be a
proper subset of the features matched by sup. |
static boolean |
FilterUtils.areDisjoint(FeatureFilter a,
FeatureFilter b)
Determines is two queries can be proven to be disjoint. |
static Location |
FilterUtils.extractOverlappingLocation(FeatureFilter ff)
Try to determine the minimal location which all features matching a given filter must overlap. |
static boolean |
FilterUtils.areEqual(FeatureFilter f1,
FeatureFilter f2)
|
static FeatureFilter |
FilterUtils.not(FeatureFilter filter)
|
static FeatureFilter |
FilterUtils.and(FeatureFilter c1,
FeatureFilter c2)
|
static FeatureFilter |
FilterUtils.and(FeatureFilter[] filters)
|
static FeatureFilter |
FilterUtils.or(FeatureFilter c1,
FeatureFilter c2)
|
static FeatureFilter |
FilterUtils.or(FeatureFilter[] filters)
|
static FeatureFilter |
FilterUtils.byParent(FeatureFilter parentFilter)
|
static FeatureFilter |
FilterUtils.byAncestor(FeatureFilter ancestorFilter)
|
static FeatureFilter |
FilterUtils.byChild(FeatureFilter childFilter)
|
static FeatureFilter |
FilterUtils.byDescendant(FeatureFilter descFilter)
|
static FeatureFilter |
FilterUtils.optimize(FeatureFilter filter)
|
static FeatureFilter |
FilterUtils.transformFilter(FeatureFilter ff,
FilterUtils.FilterTransformer trans)
This is a general framework method for transforming one filter into another. |
FeatureFilter |
FilterUtils.FilterTransformer.transform(FeatureFilter filt)
Transform a filter, or return null if it can not be transformed. |
FeatureFilter |
FilterUtils.DelegatingTransformer.transform(FeatureFilter ff)
|
FeatureHolder |
DummySequence.filter(FeatureFilter ff,
boolean recurse)
|
FeatureHolder |
DummySequence.filter(FeatureFilter ff)
|
FeatureHolder |
MergeFeatureHolder.filter(FeatureFilter ff,
boolean recurse)
When applied to a MergeFeatureHolder, this filters each child FeatureHolder independently. |
boolean |
OptimizableFilter.isProperSubset(FeatureFilter sup)
Returns true if this filter is a proper subset of sup - that is, for every feature that matches this, it also matches sup. |
boolean |
OptimizableFilter.isDisjoint(FeatureFilter filt)
Returns true if this filter is disjoint from filt - that is, there is no Feature that is accepted by both filters. |
FeatureHolder |
LazyFeatureHolder.filter(FeatureFilter ff)
|
FeatureHolder |
LazyFeatureHolder.filter(FeatureFilter ff,
boolean recurse)
|
FeatureHolder |
SimpleAssembly.filter(FeatureFilter ff,
boolean recurse)
|
FeatureHolder |
SimpleAssembly.filter(FeatureFilter ff)
|
FeatureHolder |
ProjectedFeatureHolder.filter(FeatureFilter ff)
|
FeatureHolder |
ProjectedFeatureHolder.filter(FeatureFilter ff,
boolean recurse)
|
protected FeatureFilter |
ProjectedFeatureHolder.untransformFilter(FeatureFilter ff)
Called to transform a FeatureFilter applying to our projections into a corresponding filter on the parent FeatureHolder. |
protected FeatureFilter |
ProjectedFeatureHolder.transformFilter(FeatureFilter ff)
Called to transform a FeatureFilter applying to our parent FeatureHolder into the coordinate system of our parent. |
FeatureTypes.Type |
FeatureTypes.RepositoryImpl.createType(java.lang.String name,
FeatureFilter schema,
java.util.Set parents)
Create a new type in this repository. |
Constructors in org.biojava.bio.seq with parameters of type FeatureFilter | |
FeatureFilter.Not(FeatureFilter child)
|
|
FeatureFilter.And(FeatureFilter c1,
FeatureFilter c2)
|
|
FeatureFilter.Or(FeatureFilter c1,
FeatureFilter c2)
|
|
FeatureFilter.ByParent(FeatureFilter ff)
|
|
FeatureFilter.ByAncestor(FeatureFilter ff)
|
|
FeatureFilter.OnlyChildren(FeatureFilter ff)
|
|
FeatureFilter.OnlyDescendants(FeatureFilter ff)
|
|
FeatureFilter.ByChild(FeatureFilter ff)
|
|
FeatureFilter.ByDescendant(FeatureFilter ff)
|
|
SubSequence(Sequence seq,
int start,
int end,
FeatureFilter ff,
boolean recurse)
Construct a new SubSequence of the specified sequence. |
|
SubSequence(Sequence seq,
int start,
int end,
FeatureFilter ff,
boolean recurse,
java.lang.String name)
Construct a new SubSequence of the specified sequence with a new name. |
|
LazyFeatureHolder(FeatureFilter schema)
Construct a LazyFeatureHolder with the specified schema |
|
SimpleFeatureHolder(FeatureFilter schema)
Construct a new SimpleFeatureHolder with the specified schema. |
|
ProjectedFeatureHolder(FeatureHolder fh,
FeatureFilter filter,
FeatureHolder parent,
int translation,
boolean oppositeStrand)
Deprecated. Now just wraps up a LazyFilterFeatureHolder |
Uses of FeatureFilter in org.biojava.bio.seq.db |
Methods in org.biojava.bio.seq.db with parameters of type FeatureFilter | |
FeatureHolder |
AbstractSequenceDB.filter(FeatureFilter ff)
|
FeatureHolder |
SequenceDB.filter(FeatureFilter filter)
Query features attached to all sequences in this database. |
Uses of FeatureFilter in org.biojava.bio.seq.db.biosql |
Methods in org.biojava.bio.seq.db.biosql with parameters of type FeatureFilter | |
FeatureHolder |
BioSQLSequenceDB.filter(FeatureFilter ff)
|
Uses of FeatureFilter in org.biojava.bio.seq.distributed |
Methods in org.biojava.bio.seq.distributed with parameters of type FeatureFilter | |
FeatureHolder |
DistributedSequenceDB.filter(FeatureFilter ff)
|
FeatureHolder |
GFFDataSource.getFeatures(FeatureFilter ff)
|
FeatureHolder |
GFFDataSource.getFeatures(java.lang.String id,
FeatureFilter ff,
boolean recurse)
|
FeatureHolder |
DistDataSource.getFeatures(FeatureFilter ff)
Get all features matching a FeatureFilter provided by this DistDataSource. |
FeatureHolder |
DistDataSource.getFeatures(java.lang.String id,
FeatureFilter ff,
boolean recurse)
Get all features matching a FeatureFilter on a Sequence with an ID and recurse flats. |
FeatureHolder |
SequenceDBDataSource.getFeatures(FeatureFilter ff)
|
FeatureHolder |
SequenceDBDataSource.getFeatures(java.lang.String id,
FeatureFilter ff,
boolean recurse)
|
Uses of FeatureFilter in org.biojava.bio.seq.impl |
Methods in org.biojava.bio.seq.impl that return FeatureFilter | |
FeatureFilter |
SimpleFeature.getSchema()
|
FeatureFilter |
LazyFilterFeatureHolder.getSchema()
|
FeatureFilter |
SimpleSequence.getSchema()
|
Methods in org.biojava.bio.seq.impl with parameters of type FeatureFilter | |
FeatureHolder |
SimpleFeature.filter(FeatureFilter ff)
|
FeatureHolder |
SimpleFeature.filter(FeatureFilter ff,
boolean recurse)
|
FeatureHolder |
LazyFilterFeatureHolder.filter(FeatureFilter ff)
|
FeatureHolder |
LazyFilterFeatureHolder.filter(FeatureFilter ff,
boolean recurse)
|
FeatureHolder |
SimpleSequence.filter(FeatureFilter filter)
|
FeatureHolder |
SimpleSequence.filter(FeatureFilter ff,
boolean recurse)
|
Constructors in org.biojava.bio.seq.impl with parameters of type FeatureFilter | |
LazyFilterFeatureHolder(FeatureHolder fh,
FeatureFilter ff)
|
Uses of FeatureFilter in org.biojava.bio.seq.io.filterxml |
Methods in org.biojava.bio.seq.io.filterxml that return FeatureFilter | |
FeatureFilter |
XMLFilterHandler.FilterHandler.getFeatureFilter()
|
Methods in org.biojava.bio.seq.io.filterxml with parameters of type FeatureFilter | |
void |
XMLFilterWriter.addXMLFilterWriter(FeatureFilter ff,
XMLFilterWriter.FilterWriter xfw)
Add a writer for a singleton filter. |
void |
XMLFilterWriter.writeFilter(FeatureFilter ff,
XMLWriter xw)
Write a FeatureFilter to the supplied XMLWriter |
void |
XMLFilterWriter.FilterWriter.writeFilter(FeatureFilter ff,
XMLWriter xw,
XMLFilterWriter config)
|
Uses of FeatureFilter in org.biojava.bio.seq.projection |
Methods in org.biojava.bio.seq.projection that return FeatureFilter | |
FeatureFilter |
ProjectionContext.getSchema(Feature f)
Delegate for getSchema |
FeatureFilter |
ProjectedFeature.getSchema()
|
Methods in org.biojava.bio.seq.projection with parameters of type FeatureFilter | |
FeatureHolder |
ProjectedFeature.filter(FeatureFilter ff)
|
FeatureHolder |
ProjectedFeature.filter(FeatureFilter ff,
boolean recurse)
|
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