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Title: FramedFeature.
Description: An feature that includes the concept of frame by extending stranded.
Copyright: Copyright (c) 2001
Nested Class Summary | |
static class |
FramedFeature.ReadingFrame
A singleton to hold the frame information |
static class |
FramedFeature.Template
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Nested classes inherited from class org.biojava.bio.seq.StrandedFeature |
StrandedFeature.Strand |
Nested classes inherited from class org.biojava.bio.seq.Feature |
Feature.ByLocationComparator |
Nested classes inherited from class org.biojava.bio.seq.FeatureHolder |
FeatureHolder.EmptyFeatureHolder |
Nested classes inherited from class org.biojava.bio.Annotatable |
Annotatable.AnnotationForwarder |
Field Summary | |
static FramedFeature.ReadingFrame |
FRAME_0
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static FramedFeature.ReadingFrame |
FRAME_1
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static FramedFeature.ReadingFrame |
FRAME_2
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Fields inherited from interface org.biojava.bio.seq.StrandedFeature |
NEGATIVE, POSITIVE, UNKNOWN |
Fields inherited from interface org.biojava.bio.seq.Feature |
byLocationOrder, LOCATION, PROPERTY_DATA_KEY, SOURCE, TYPE |
Fields inherited from interface org.biojava.bio.seq.FeatureHolder |
EMPTY_FEATURE_HOLDER, FEATURES, SCHEMA |
Fields inherited from interface org.biojava.bio.Annotatable |
ANNOTATION |
Method Summary | |
FramedFeature.ReadingFrame |
getReadingFrame()
return the reading frame of the feature. |
StrandedFeature.Strand |
getStrand()
Retrieve the strand that this feature lies upon. |
Methods inherited from interface org.biojava.bio.seq.StrandedFeature |
getSymbols |
Methods inherited from interface org.biojava.bio.seq.Feature |
features, getLocation, getParent, getSequence, getSource, getType, makeTemplate, setLocation, setSource, setType |
Methods inherited from interface org.biojava.bio.seq.FeatureHolder |
containsFeature, countFeatures, createFeature, filter, filter, getSchema, removeFeature |
Methods inherited from interface org.biojava.utils.Changeable |
addChangeListener, addChangeListener, isUnchanging, removeChangeListener, removeChangeListener |
Methods inherited from interface org.biojava.bio.Annotatable |
getAnnotation |
Field Detail |
public static final FramedFeature.ReadingFrame FRAME_0
public static final FramedFeature.ReadingFrame FRAME_1
public static final FramedFeature.ReadingFrame FRAME_2
Method Detail |
public FramedFeature.ReadingFrame getReadingFrame()
public StrandedFeature.Strand getStrand()
StrandedFeature
This will be one of StrandedFeature.POSITIVE or NEGATIVE.
getStrand
in interface StrandedFeature
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