Package org.snpsift.caseControl
Class VariantCounter
- java.lang.Object
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- org.snpsift.caseControl.VariantCounter
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public class VariantCounter extends java.lang.Object
A counnter for genotypes- Author:
- pcingola
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Constructor Summary
Constructors Constructor Description VariantCounter(int size)
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Method Summary
All Methods Instance Methods Concrete Methods Modifier and Type Method Description void
addEffect(java.lang.String effStr)
int
countNonZeroGenotypes()
int
getGenotype(int idx)
void
incGenotype(int idx)
void
incGenotype(int idx, int value)
void
parseGenotypes(org.snpeff.vcf.VcfEntry ve)
Update genotype countsvoid
setGenotype(int idx, int value)
java.lang.String
toString()
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Method Detail
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addEffect
public void addEffect(java.lang.String effStr)
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countNonZeroGenotypes
public int countNonZeroGenotypes()
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getGenotype
public int getGenotype(int idx)
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incGenotype
public void incGenotype(int idx)
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incGenotype
public void incGenotype(int idx, int value)
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parseGenotypes
public void parseGenotypes(org.snpeff.vcf.VcfEntry ve)
Update genotype counts- Parameters:
ve
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setGenotype
public void setGenotype(int idx, int value)
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toString
public java.lang.String toString()
- Overrides:
toString
in classjava.lang.Object
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