Class TestCasesAnn
java.lang.Object
org.snpeff.snpEffect.testCases.unity.TestCasesBase
org.snpeff.snpEffect.testCases.integration.TestCasesAnn
Test case
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Field Summary
Fields inherited from class org.snpeff.snpEffect.testCases.unity.TestCasesBase
addUtrs, BASE_DIR, chromoBases, chromoSequence, chromosome, codonTable, config, debug, gene, genome, genomeName, maxExons, maxGeneLen, maxTranscripts, minExons, numGenes, onlyMinusStrand, onlyPlusStrand, prefixes, rand, randSeed, shiftHgvs, snpEffectPredictor, spliceRegionExonSize, spliceRegionIntronMax, spliceRegionIntronMin, testType, transcript, verbose
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Constructor Summary
Constructors -
Method Summary
Modifier and TypeMethodDescriptionvoid
void
Check that RAW alt fields are kept in 'Allele/Genotype'void
void
void
void
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, path, pathClassName, prependSequenceToFirstExon
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Constructor Details
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TestCasesAnn
public TestCasesAnn()
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Method Details
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test_01_Annotation_Stop
@Test public void test_01_Annotation_Stop() -
test_01_VcfRawAlt
@Test public void test_01_VcfRawAlt()Check that RAW alt fields are kept in 'Allele/Genotype' -
test_02_Annotation_SpliceRegion
@Test public void test_02_Annotation_SpliceRegion() -
test_03_Annotation_NonSyn
@Test public void test_03_Annotation_NonSyn() -
test_04_Annotation_Intergenic
@Test public void test_04_Annotation_Intergenic() -
test_05_Annotation_EndOfChromosome
@Test public void test_05_Annotation_EndOfChromosome()
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