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java.lang.Objectorg.biojava.utils.AbstractChangeable
org.biojava.bio.seq.impl.SimpleFeature
org.biojava.bio.seq.impl.SimpleStrandedFeature
org.biojava.bio.seq.impl.SimpleHomologyFeature
public class SimpleHomologyFeature
Nested Class Summary |
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Nested classes/interfaces inherited from interface org.biojava.bio.seq.homol.HomologyFeature |
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HomologyFeature.Template |
Nested classes/interfaces inherited from interface org.biojava.bio.seq.StrandedFeature |
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StrandedFeature.Strand |
Nested classes/interfaces inherited from interface org.biojava.bio.seq.Feature |
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Feature.ByLocationComparator |
Nested classes/interfaces inherited from interface org.biojava.bio.seq.FeatureHolder |
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FeatureHolder.EmptyFeatureHolder |
Nested classes/interfaces inherited from interface org.biojava.bio.Annotatable |
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Annotatable.AnnotationForwarder |
Field Summary |
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Fields inherited from interface org.biojava.bio.seq.StrandedFeature |
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NEGATIVE, POSITIVE, STRAND, UNKNOWN |
Fields inherited from interface org.biojava.bio.seq.Feature |
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byLocationOrder, LOCATION, PROPERTY_DATA_KEY, SOURCE, SOURCETERM, TYPE, TYPETERM |
Fields inherited from interface org.biojava.bio.seq.FeatureHolder |
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EMPTY_FEATURE_HOLDER, FEATURES, SCHEMA |
Fields inherited from interface org.biojava.bio.Annotatable |
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ANNOTATION |
Constructor Summary | |
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SimpleHomologyFeature(Sequence sourceSeq,
FeatureHolder parent,
HomologyFeature.Template template)
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Method Summary | |
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protected void |
fillTemplate(HomologyFeature.Template ft)
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Homology |
getHomology()
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Feature.Template |
makeTemplate()
Create a new Template that could be used to generate a feature identical to this one. |
String |
toString()
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Methods inherited from class org.biojava.bio.seq.impl.SimpleStrandedFeature |
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fillTemplate, getStrand, getSymbols, setStrand |
Methods inherited from class org.biojava.bio.seq.impl.SimpleFeature |
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containsFeature, countFeatures, createFeature, equals, featureHolderAllocated, features, fillTemplate, filter, filter, getAnnotation, getChangeSupport, getFeatureHolder, getLocation, getParent, getSchema, getSequence, getSource, getSourceTerm, getType, getTypeTerm, hashCode, realizeFeature, removeFeature, setLocation, setSource, setSourceTerm, setType, setTypeTerm |
Methods inherited from class org.biojava.utils.AbstractChangeable |
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addChangeListener, addChangeListener, generateChangeSupport, hasListeners, hasListeners, isUnchanging, removeChangeListener, removeChangeListener |
Methods inherited from class java.lang.Object |
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clone, finalize, getClass, notify, notifyAll, wait, wait, wait |
Methods inherited from interface org.biojava.bio.seq.StrandedFeature |
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getStrand, getSymbols, setStrand |
Methods inherited from interface org.biojava.bio.seq.Feature |
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features, getLocation, getParent, getSequence, getSource, getSourceTerm, getType, getTypeTerm, setLocation, setSource, setSourceTerm, setType, setTypeTerm |
Methods inherited from interface org.biojava.bio.seq.FeatureHolder |
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containsFeature, countFeatures, createFeature, filter, filter, getSchema, removeFeature |
Methods inherited from interface org.biojava.utils.Changeable |
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addChangeListener, addChangeListener, isUnchanging, removeChangeListener, removeChangeListener |
Methods inherited from interface org.biojava.bio.Annotatable |
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getAnnotation |
Methods inherited from interface org.biojava.utils.Changeable |
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addChangeListener, addChangeListener, isUnchanging, removeChangeListener, removeChangeListener |
Constructor Detail |
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public SimpleHomologyFeature(Sequence sourceSeq, FeatureHolder parent, HomologyFeature.Template template) throws IllegalArgumentException, IllegalAlphabetException
IllegalArgumentException
IllegalAlphabetException
Method Detail |
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public Homology getHomology()
getHomology
in interface HomologyFeature
public Feature.Template makeTemplate()
Feature
makeTemplate
in interface Feature
makeTemplate
in class SimpleStrandedFeature
protected void fillTemplate(HomologyFeature.Template ft)
public String toString()
toString
in class SimpleStrandedFeature
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