Package org.snpeff.outputFormatter
Class BedAnnotationOutputFormatter
- java.lang.Object
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- org.snpeff.outputFormatter.OutputFormatter
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- org.snpeff.outputFormatter.BedOutputFormatter
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- org.snpeff.outputFormatter.BedAnnotationOutputFormatter
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public class BedAnnotationOutputFormatter extends BedOutputFormatter
Formats: Show all annotations that intersect the BED input file. WARNING: In this format, the output are annotations (instead of input intervals)- Author:
- pcingola
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Constructor Summary
Constructors Constructor Description BedAnnotationOutputFormatter()
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Method Summary
All Methods Instance Methods Concrete Methods Modifier and Type Method Description java.lang.String
toString()
Show all effectsjava.lang.String
toStringHeader()
Show header-
Methods inherited from class org.snpeff.outputFormatter.BedOutputFormatter
endSection, setOutOffset, startSection
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Methods inherited from class org.snpeff.outputFormatter.OutputFormatter
add, clone, close, print, printSection, setChrStr, setCommandLineStr, setConfig, setOutputFile, setShowHeader, setSupressOutput, setUseGeneId, setUseHgvs, setUseOicr, setUseSequenceOntology, setVariantEffectResutFilter, setVersion
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Method Detail
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toString
public java.lang.String toString()
Show all effects- Overrides:
toString
in classBedOutputFormatter
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toStringHeader
public java.lang.String toStringHeader()
Show header- Overrides:
toStringHeader
in classBedOutputFormatter
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