Class TestCasesAnnParse
java.lang.Object
org.snpeff.snpEffect.testCases.unity.TestCasesBase
org.snpeff.snpEffect.testCases.unity.TestCasesAnnParse
Test case for parsing ANN fields
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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
Make sure all effect_tpyes have appropriate impacts, regions, etc.void
void
void
Make sure there are no exceptions thrown when parsing TFBS_abalation SO termMethods 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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TestCasesAnnParse
public TestCasesAnnParse()
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Method Details
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test_EffectType
@Test public void test_EffectType()Make sure all effect_tpyes have appropriate impacts, regions, etc. -
test_old_SO
@Test public void test_old_SO() -
test_old_SO_vcf
@Test public void test_old_SO_vcf() -
testCase_tfbs_ablation
@Test public void testCase_tfbs_ablation()Make sure there are no exceptions thrown when parsing TFBS_abalation SO term
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