Class CompareToVep
- java.lang.Object
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- org.snpeff.snpEffect.testCases.integration.CompareToVep
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public class CompareToVep extends java.lang.Object
Compare our results to ENSEML's Variant Effect predictor's output- Author:
- pcingola
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Constructor Summary
Constructors Constructor Description CompareToVep(java.lang.String genomeName, boolean verbose)
CompareToVep(java.lang.String genomeName, java.lang.String[] addArgs, boolean verbose)
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Method Summary
All Methods Instance Methods Concrete Methods Modifier and Type Method Description boolean
checkComapred()
void
compareVep(java.lang.String vcf)
Compare all VCF entriesvoid
setCompareHgvs()
void
setCompareHgvsDna(boolean compareHgvsDna)
void
setCompareHgvsProt(boolean compareHgvsProt)
void
setOnlyProtein(boolean onlyProtein)
void
setShiftHgvs(boolean shiftHgvs)
void
setStrict(boolean strict)
java.lang.String
toString()
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Method Detail
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checkComapred
public boolean checkComapred()
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compareVep
public void compareVep(java.lang.String vcf)
Compare all VCF entries
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setCompareHgvs
public void setCompareHgvs()
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setCompareHgvsDna
public void setCompareHgvsDna(boolean compareHgvsDna)
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setCompareHgvsProt
public void setCompareHgvsProt(boolean compareHgvsProt)
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setOnlyProtein
public void setOnlyProtein(boolean onlyProtein)
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setShiftHgvs
public void setShiftHgvs(boolean shiftHgvs)
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setStrict
public void setStrict(boolean strict)
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toString
public java.lang.String toString()
- Overrides:
toString
in classjava.lang.Object
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