Class TestCasesIntegrationHgvs
- java.lang.Object
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- org.snpeff.snpEffect.testCases.integration.TestCasesIntegrationBase
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- org.snpeff.snpEffect.testCases.integration.TestCasesIntegrationHgvs
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public class TestCasesIntegrationHgvs extends TestCasesIntegrationBase
Test random SNP changes- Author:
- pcingola
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Field Summary
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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 Constructor Description TestCasesIntegrationHgvs()
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Method Summary
All Methods Instance Methods Concrete Methods Modifier and Type Method Description void
test_02()
void
test_03()
void
test_04()
void
test_05()
void
test_06()
void
test_10_MixedVep_HGVS()
void
test_11_Hg19Hgvs()
void
test_11_Hg19Hgvs_noShift()
void
test_12_BRCA_Splice_15_Hgvs()
Using non-standard splice size (15 instead of 2) may cause some HGVS annotations issuesvoid
test_14_splice_region_Hgvs()
Using non-standard splice size (15 instead of 2) may cause some HGVS annotations issuesvoid
test_15_hgvs_INS_intergenic()
Using non-standard splice size (15 instead of 2) may cause some HGVS annotations issues-
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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Method Detail
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test_02
@Test public void test_02()
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test_03
@Test public void test_03()
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test_04
@Test public void test_04()
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test_05
@Test public void test_05()
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test_06
@Test public void test_06()
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test_10_MixedVep_HGVS
@Test public void test_10_MixedVep_HGVS()
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test_11_Hg19Hgvs
@Test public void test_11_Hg19Hgvs()
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test_11_Hg19Hgvs_noShift
@Test public void test_11_Hg19Hgvs_noShift()
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test_12_BRCA_Splice_15_Hgvs
@Test public void test_12_BRCA_Splice_15_Hgvs()
Using non-standard splice size (15 instead of 2) may cause some HGVS annotations issues
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test_14_splice_region_Hgvs
@Test public void test_14_splice_region_Hgvs()
Using non-standard splice size (15 instead of 2) may cause some HGVS annotations issues
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test_15_hgvs_INS_intergenic
@Test public void test_15_hgvs_INS_intergenic()
Using non-standard splice size (15 instead of 2) may cause some HGVS annotations issues
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