Class TestCasesIntegrationApply

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

public class TestCasesIntegrationApply extends TestCasesIntegrationBase
Test 'apply' method (apply variant to marker)
Author:
pcingola
  • Field Details

    • SHOW_EVERY

      public static int SHOW_EVERY
  • Constructor Details

    • TestCasesIntegrationApply

      public TestCasesIntegrationApply()
  • Method Details

    • test_01_Exon_SNPs

      @Test public void test_01_Exon_SNPs()
      Test 'apply' on exons (test sequence changes) Only using SNPs variants
    • test_02_Exon_INS

      @Test public void test_02_Exon_INS()
      Test 'apply' on exons (test sequence changes) Only using insertion variants
    • test_03_Exon_DEL

      @Test public void test_03_Exon_DEL()
      Test 'apply' on exons (test sequence changes) Only using deletions variants
    • test_04_Exon_MNP

      @Test public void test_04_Exon_MNP()
      Test 'apply' on exons (test sequence changes) Only using deletions variants
    • test_apply_05_delete_whole_exon

      @Test public void test_apply_05_delete_whole_exon()
      Exon completely removed by a deletion. Bug triggers a null pointer on 'Transcript.apply()': Fixed
    • test_apply_06_delete_upstream

      @Test public void test_apply_06_delete_upstream()
      Upstream region is completely removed by a deletion. Bug triggers a null pointer: Fixed
    • test_apply_07_delete_upstream

      @Test public void test_apply_07_delete_upstream()
      Upstream region is completely removed by a deletion. Bug triggers a null pointer: Fixed