Package htsjdk.tribble.bed
Class FullBEDFeature
- java.lang.Object
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- htsjdk.tribble.bed.SimpleBEDFeature
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- htsjdk.tribble.bed.FullBEDFeature
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- All Implemented Interfaces:
Locatable
,BEDFeature
,Feature
public class FullBEDFeature extends SimpleBEDFeature implements BEDFeature
Object for full BED file.
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Nested Class Summary
Nested Classes Modifier and Type Class Description class
FullBEDFeature.Exon
A sub region of a feature.class
FullBEDFeature.Exon2
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Field Summary
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Fields inherited from class htsjdk.tribble.bed.SimpleBEDFeature
chr, end, start, strand
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Constructor Summary
Constructors Constructor Description FullBEDFeature(String chr, int start, int end)
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Method Summary
All Methods Instance Methods Concrete Methods Modifier and Type Method Description void
addExon(int exonStart, int exonEnd, int cdStart, int cdEnd, int exonNumber)
void
addExon(FullBEDFeature.Exon exon)
List<FullBEDFeature.Exon>
getExons()
void
setExons(List<FullBEDFeature.Exon> exons)
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Methods inherited from class htsjdk.tribble.bed.SimpleBEDFeature
getColor, getContig, getDescription, getEnd, getLink, getName, getScore, getStart, getStrand, getType, setChr, setColor, setDescription, setEnd, setLink, setName, setScore, setStart, setStrand, setType
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Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
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Methods inherited from interface htsjdk.tribble.bed.BEDFeature
getColor, getDescription, getLink, getName, getScore, getStrand, getType
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Methods inherited from interface htsjdk.samtools.util.Locatable
contains, contigsMatch, getContig, getEnd, getLengthOnReference, getStart, overlaps, withinDistanceOf
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Constructor Detail
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FullBEDFeature
public FullBEDFeature(String chr, int start, int end)
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Method Detail
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getExons
public List<FullBEDFeature.Exon> getExons()
- Specified by:
getExons
in interfaceBEDFeature
- Overrides:
getExons
in classSimpleBEDFeature
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setExons
public void setExons(List<FullBEDFeature.Exon> exons)
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addExon
public void addExon(FullBEDFeature.Exon exon)
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addExon
public void addExon(int exonStart, int exonEnd, int cdStart, int cdEnd, int exonNumber)
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