Class TestCasesStructuralDup

java.lang.Object
org.snpeff.snpEffect.testCases.unity.TestCasesBase
org.snpeff.snpEffect.testCases.unity.TestCasesStructuralDup

public class TestCasesStructuralDup extends TestCasesBase
Test case for structural variants: Duplications
  • Constructor Details

    • TestCasesStructuralDup

      public TestCasesStructuralDup()
  • Method Details

    • checkEffects

      protected void checkEffects(Variant variant, EffectType[] expEffs, String[] expHgvsp, String[] expHgvsc, VariantEffect.EffectImpact expectedImpact, String[] expAnns)
    • init

      protected void init()
      Overrides:
      init in class TestCasesBase
    • test01_dupGene

      @Test public void test01_dupGene()
      Duplication Whole gene
    • test01_dupTr

      @Test public void test01_dupTr()
      Duplication whole transcript
    • test02

      @Test public void test02()
      Duplication One coding exon
    • test03

      @Test public void test03()
      Duplication two coding exons (within the same gene)
    • test04

      @Test public void test04()
      Duplication Part of one coding exon
    • test05

      @Test public void test05()
      Duplication Part of two coding exons (within the same gene)
    • test06

      @Test public void test06()
      Duplication Two genes
    • test07

      @Test public void test07()
      Duplication After gene's coding region (LOW impact)
    • test08

      @Test public void test08()
      Duplication Part of two genes cutting on introns
    • test09

      @Test public void test09()
      Duplication Part of two genes cutting exons
    • test10

      @Test public void test10()
      Duplication Intron