Class TestCasesDnaSequence

Method Details

• randDnaSeqGetBasesTest

  public void randDnaSeqGetBasesTest(int numTests, int numTestsPerSeq, int lenMask, long seed)

  Create random sequences and store them in a DnaSequence. Compare getting a few random bases from the original and DnaSequence sequences.

• randDnaSeqGetBaseTest

  public void randDnaSeqGetBaseTest(int numTests, int numTestsPerSeq, int lenMask, long seed)

  Create random sequences and store them in a DnaSequence. Compare getting a single random base from the original and DnaSequence sequences.

• randDnaSeqTest

  public void randDnaSeqTest(int numTests, int lenMask, long seed)

  Create random sequences and compare to storing them in a DnaSequence

• randReplaceBaseTest

  public void randReplaceBaseTest(int numTests, int numTestsPerSeq, int lenMask, long seed)

  Create random sequences and store them in a DnaSequence. Compare after replacing random bases from the original and DnaSequence sequences.

• randTestQual

  public void randTestQual(int numTests, int lenMask, long seed)

  Create random sequences (and qualities) and compare to storing them in a DnaAndQuality

• test_01_short

  @Test public void test_01_short()

• test_01_short_getBase

  @Test public void test_01_short_getBase()

• test_01_short_getBases

  @Test public void test_01_short_getBases()

• test_01_short_replaceBase

  @Test public void test_01_short_replaceBase()

• test_02_long

  @Test public void test_02_long()

• test_02_long_getBase

  @Test public void test_02_long_getBase()

• test_02_long_getBases

  @Test public void test_02_long_getBases()

• test_02_long_replaceBase

  @Test public void test_02_long_replaceBase()

• test_04_Pe

  @Test public void test_04_Pe()

• test_05_fastqReader

  @Test public void test_05_fastqReader()

• test_05_quality_short

  @Test public void test_05_quality_short()

• test_06_quality_long

  @Test public void test_06_quality_long()