Package org.snpeff.stats
Class VcfStats
- java.lang.Object
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- org.snpeff.stats.VcfStats
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- All Implemented Interfaces:
SamplingStats<VcfEntry>
public class VcfStats extends java.lang.Object implements SamplingStats<VcfEntry>
VCF statistics: This are usually multi-sample statistics- Author:
- pcingola
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Constructor Summary
Constructors Constructor Description VcfStats()
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Method Summary
All Methods Instance Methods Concrete Methods Modifier and Type Method Description int
getCountMultiallelic()
GenotypeStats
getGenotypeStats()
IntStats
getQualityStats()
java.lang.String
getQualityStatsHistoUrl()
TsTvStats
getTsTvStats()
TsTvStats
getTsTvStatsKnown()
boolean
hasData()
Does this statistic have any data?void
sample(VcfEntry vcfEntry)
Analyze one sample
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Method Detail
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getCountMultiallelic
public int getCountMultiallelic()
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getGenotypeStats
public GenotypeStats getGenotypeStats()
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getQualityStats
public IntStats getQualityStats()
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getQualityStatsHistoUrl
public java.lang.String getQualityStatsHistoUrl()
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getTsTvStats
public TsTvStats getTsTvStats()
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getTsTvStatsKnown
public TsTvStats getTsTvStatsKnown()
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hasData
public boolean hasData()
Description copied from interface:SamplingStats
Does this statistic have any data?- Specified by:
hasData
in interfaceSamplingStats<VcfEntry>
- Returns:
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sample
public void sample(VcfEntry vcfEntry)
Description copied from interface:SamplingStats
Analyze one sample- Specified by:
sample
in interfaceSamplingStats<VcfEntry>
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