Package org.snpeff.interval
Class SpliceSiteBranchU12
- java.lang.Object
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- org.snpeff.interval.Interval
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- org.snpeff.interval.Marker
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- org.snpeff.interval.SpliceSite
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- org.snpeff.interval.SpliceSiteBranch
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- org.snpeff.interval.SpliceSiteBranchU12
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- All Implemented Interfaces:
java.io.Serializable
,java.lang.Cloneable
,java.lang.Comparable<Interval>
,TxtSerializable
public class SpliceSiteBranchU12 extends SpliceSiteBranch
A (putative) U12 branch site.- Author:
- pablocingolani
- See Also:
- Serialized Form
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Field Summary
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Fields inherited from class org.snpeff.interval.SpliceSite
CORE_SPLICE_SITE_SIZE, SPLICE_REGION_EXON_SIZE, SPLICE_REGION_INTRON_MAX, SPLICE_REGION_INTRON_MIN
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Fields inherited from class org.snpeff.interval.Interval
chromosomeNameOri, end, id, parent, start, strandMinus
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Constructor Summary
Constructors Constructor Description SpliceSiteBranchU12()
SpliceSiteBranchU12(Intron parent, int start, int end, boolean strandMinus, java.lang.String id)
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Method Summary
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Methods inherited from class org.snpeff.interval.SpliceSiteBranch
intersectsCoreSpliceSite
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Methods inherited from class org.snpeff.interval.SpliceSite
isShowWarningIfParentDoesNotInclude, variantEffect
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Methods inherited from class org.snpeff.interval.Marker
adjust, apply, applyDel, applyDup, applyIns, applyMixed, clone, cloneShallow, codonTable, compareTo, compareToPos, distance, distanceBases, getParent, getType, idChain, idChain, idChain, includes, intersect, isAdjustIfParentDoesNotInclude, minus, query, query, readTxt, serializeParse, serializeSave, shouldApply, toString, union, variantEffectNonRef
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Methods inherited from class org.snpeff.interval.Interval
equals, findParent, getChromosome, getChromosomeName, getChromosomeNameOri, getChromosomeNum, getEnd, getGenome, getGenomeName, getId, getStart, getStrand, hashCode, intersects, intersects, intersects, intersects, intersectSize, isCircular, isSameChromo, isStrandMinus, isStrandPlus, isValid, setChromosomeNameOri, setEnd, setId, setParent, setStart, setStrandMinus, shiftCoordinates, size, toStr, toStringAsciiArt
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Constructor Detail
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SpliceSiteBranchU12
public SpliceSiteBranchU12()
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SpliceSiteBranchU12
public SpliceSiteBranchU12(Intron parent, int start, int end, boolean strandMinus, java.lang.String id)
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