Class TestCasesIntegrationMixedVariants
java.lang.Object
org.snpeff.snpEffect.testCases.integration.TestCasesIntegrationBase
org.snpeff.snpEffect.testCases.integration.TestCasesIntegrationMixedVariants
Test mixed variants
- Author:
- pcingola
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Field Summary
Fields inherited from class org.snpeff.snpEffect.testCases.integration.TestCasesIntegrationBase
BASE_DIR, debug, ignoreErrors, prefixes, shiftHgvs, SHOW_EVERY, testsDir, testType, verbose
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Constructor Summary
Constructors -
Method Summary
Modifier and TypeMethodDescriptionvoid
compareVep
(String genome, String vcf) Compare with results from ENSEMBL's VEP to SnpEff Use VCF having VEP's resultsvoid
Make sure we can read VCF and parse variants without producing any exceptionvoid
void
void
void
void
void
void
void
void
Methods inherited from class org.snpeff.snpEffect.testCases.integration.TestCasesIntegrationBase
applyTranscript, before, build, buildAndCompare, buildEmbl, buildGeneBank, buildGeneBank, buildGetBuildCmd, buildGff3AndCompare, buildGtfAndCompare, checkHgvs, checkNoChange, checkTranscriptError, compareHgvs, compareHgvs, compareVep, compareVepSO, init, loadSnpEffectPredictor, path, pathClassName, pathMigrate, showTranscripts, showTranscripts, snpEffect, snpEffect, snpEffectCancer
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Constructor Details
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TestCasesIntegrationMixedVariants
public TestCasesIntegrationMixedVariants()
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Method Details
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compareVep
Compare with results from ENSEMBL's VEP to SnpEff Use VCF having VEP's results -
test_01_MixedVep
@Test public void test_01_MixedVep()Make sure we can read VCF and parse variants without producing any exception -
test_02_MixedVep
@Test public void test_02_MixedVep() -
test_03_MixedVep
@Test public void test_03_MixedVep() -
test_04_MixedVep
@Test public void test_04_MixedVep() -
test_05_MixedVep
@Test public void test_05_MixedVep() -
test_06_MixedVep
@Test public void test_06_MixedVep() -
test_07_MixedVep
@Test public void test_07_MixedVep() -
test_08_MixedVep
@Test public void test_08_MixedVep() -
test_09_MixedVep
@Test public void test_09_MixedVep() -
test_11_ExonRank
@Test public void test_11_ExonRank()
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