Class TestCasesAnn
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- org.snpeff.snpEffect.testCases.unity.TestCasesBase
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- org.snpeff.snpEffect.testCases.integration.TestCasesAnn
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public class TestCasesAnn extends TestCasesBase
Test case
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Field Summary
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Fields inherited from class org.snpeff.snpEffect.testCases.unity.TestCasesBase
addUtrs, chromoBases, chromoSequence, chromosome, codonTable, config, debug, gene, genome, genomeName, maxExons, maxGeneLen, maxTranscripts, minExons, numGenes, onlyMinusStrand, onlyPlusStrand, rand, randSeed, shiftHgvs, snpEffectPredictor, spliceRegionExonSize, spliceRegionIntronMax, spliceRegionIntronMin, transcript, verbose
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Constructor Summary
Constructors Constructor Description TestCasesAnn()
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Method Summary
All Methods Instance Methods Concrete Methods Modifier and Type Method Description void
test_01_Annotation_Stop()
void
test_01_VcfRawAlt()
Check that RAW alt fields are kept in 'Allele/Genotype'void
test_02_Annotation_SpliceRegion()
void
test_03_Annotation_NonSyn()
void
test_04_Annotation_Intergenic()
void
test_05_Annotation_EndOfChromosome()
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Methods inherited from class org.snpeff.snpEffect.testCases.unity.TestCasesBase
after, before, checkApply, checkApplyDel, checkApplyIns, checkApplyMixed, checkApplyMnp, checkApplySnp, checkEffect, checkEffect, formatVersion, hasEffect, init, initRand, initSnpEffPredictor, initSnpEffPredictor, prependSequenceToFirstExon, showTranscripts
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Method Detail
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test_01_Annotation_Stop
public void test_01_Annotation_Stop()
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test_01_VcfRawAlt
public void test_01_VcfRawAlt()
Check that RAW alt fields are kept in 'Allele/Genotype'
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test_02_Annotation_SpliceRegion
public void test_02_Annotation_SpliceRegion()
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test_03_Annotation_NonSyn
public void test_03_Annotation_NonSyn()
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test_04_Annotation_Intergenic
public void test_04_Annotation_Intergenic()
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test_05_Annotation_EndOfChromosome
public void test_05_Annotation_EndOfChromosome()
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