Class TestCasesIntegrationEff

java.lang.Object
org.snpeff.snpEffect.testCases.integration.TestCasesIntegrationBase
org.snpeff.snpEffect.testCases.integration.TestCasesIntegrationEff

public class TestCasesIntegrationEff extends TestCasesIntegrationBase
Test cases for other 'effect' issues
Author:
pcingola
  • Constructor Details

    • TestCasesIntegrationEff

      public TestCasesIntegrationEff()
  • Method Details

    • test_01

      @Test public void test_01()
      Test output order
    • test_01_canonical

      @Test public void test_01_canonical()
      Test output order: Canonical first
    • test_02

      @Test public void test_02()
      Test GATK option: At most one effect per VCF entry
    • test_03_EmptyVcf

      @Test public void test_03_EmptyVcf()
      Make sure that empty VCF does not trigger an exception when creating the summary
    • test_04

      @Test public void test_04()
      Test that CSV summary does not throw any error
    • test_05

      @Test public void test_05()
      GATK mode should not have SPLICE_REGION (it is currently not supported)
    • test_06

      @Test public void test_06()
      Test an MNP at the end of the transcript: We should be able to annotate without throwing any error
    • test_07

      @Test public void test_07()
      Test an MNP at the end of the transcript: We should be able to annotate without throwing any error
    • test_08_gatk_missing_annotations

      @Test public void test_08_gatk_missing_annotations()
      Fixing bug: GATK does not annotate all VCF entries