Package org.snpeff.interval
Class MicroRnaBindingSite
- 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.MicroRnaBindingSite
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- All Implemented Interfaces:
java.io.Serializable
,java.lang.Cloneable
,java.lang.Comparable<Interval>
,TxtSerializable
public class MicroRnaBindingSite extends Marker
miRna binding site (usually this was predicted by some algorithm)- Author:
- pcingola
- See Also:
- Serialized Form
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Field Summary
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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 MicroRnaBindingSite()
MicroRnaBindingSite(Marker parent, int start, int end, boolean strandMinus, java.lang.String id, double pValue)
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Method Summary
All Methods Instance Methods Concrete Methods Modifier and Type Method Description MicroRnaBindingSite
cloneShallow()
Perform a shallow cloneboolean
variantEffect(Variant variant, VariantEffects changeEffects)
Calculate the effect of this variant-
Methods inherited from class org.snpeff.interval.Marker
adjust, apply, applyDel, applyDup, applyIns, applyMixed, clone, codonTable, compareTo, compareToPos, distance, distanceBases, getParent, getType, idChain, idChain, idChain, includes, intersect, isAdjustIfParentDoesNotInclude, isShowWarningIfParentDoesNotInclude, 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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MicroRnaBindingSite
public MicroRnaBindingSite()
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MicroRnaBindingSite
public MicroRnaBindingSite(Marker parent, int start, int end, boolean strandMinus, java.lang.String id, double pValue)
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Method Detail
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cloneShallow
public MicroRnaBindingSite cloneShallow()
Description copied from class:Marker
Perform a shallow clone- Overrides:
cloneShallow
in classMarker
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variantEffect
public boolean variantEffect(Variant variant, VariantEffects changeEffects)
Description copied from class:Marker
Calculate the effect of this variant- Overrides:
variantEffect
in classMarker
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