Package org.snpeff.vcf
Class VcfLof
- java.lang.Object
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- org.snpeff.vcf.VcfLof
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- Direct Known Subclasses:
VcfNmd
public class VcfLof extends java.lang.Object
An 'LOF' entry in a vcf line- Author:
- pablocingolani
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Method Summary
All Methods Static Methods Instance Methods Concrete Methods Modifier and Type Method Description static int
fieldNum(java.lang.String name)
Convert from field name to field numberjava.lang.String
getGeneId()
java.lang.String
getGeneName()
int
getNumTranscripts()
double
getPercentAffected()
java.lang.String
getPercentAffectedStr()
VcfEntry
getVcfEntry()
java.lang.String
toString()
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Constructor Detail
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VcfLof
public VcfLof(Gene gene, double percentAffected)
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VcfLof
public VcfLof(java.lang.String lofStr)
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VcfLof
public VcfLof(java.lang.String geneName, java.lang.String geneId, int numTranscripts, double percentAffected)
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VcfLof
public VcfLof(VcfEntry vcfEntry, java.lang.String lofStr)
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Method Detail
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fieldNum
public static int fieldNum(java.lang.String name)
Convert from field name to field number
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getGeneId
public java.lang.String getGeneId()
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getGeneName
public java.lang.String getGeneName()
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getNumTranscripts
public int getNumTranscripts()
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getPercentAffected
public double getPercentAffected()
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getPercentAffectedStr
public java.lang.String getPercentAffectedStr()
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getVcfEntry
public VcfEntry getVcfEntry()
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toString
public java.lang.String toString()
- Overrides:
toString
in classjava.lang.Object
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