Python _generate_taxonomic_agreement_summary Examples

Example #1

File: test_summarize_taxonomic_agreement.py Project: infotroph/nested_reference_otus

 def test_generate_taxonomic_agreement_summary_standard(self):
     """Test computing the taxonomic agreement for seqs in OTUs."""
     exp = {'A': [3, ['1', '2', '3'], [100.0, 66.66666666666666,
                  33.33333333333333], [['A'], ['B', 'Z'], ['C', 'D', 'T']]]}
     obs = _generate_taxonomic_agreement_summary(self.otu_map1,
                                                 self.tax_map1, 3)
     self.assertFloatEqual(obs, exp)

Example #2

File: test_summarize_taxonomic_agreement.py Project: wasade/nested_reference_otus

 def test_generate_taxonomic_agreement_summary_ref_only(self):
     """Test computing the taxonomic agreement for OTU with only a ref."""
     exp = {'A': [2, [100.0, 100.0, 0.0], [['A'], ['B'], ['C', 'D']]],
            'B': [1, [0.0, 0.0, 0.0], [['A'], ['Z'], ['T']]]}
     obs = _generate_taxonomic_agreement_summary(self.otu_map2,
                                                 self.tax_map1, 3)
     self.assertEqual(obs, exp)

Example #3

 def test_generate_taxonomic_agreement_summary_ref_only(self):
     """Test computing the taxonomic agreement for OTU with only a ref."""
     exp = {
         'A':
         [2, ['1', '2'], [100.0, 100.0, 50.0], [['A'], ['B'], ['C', 'D']]],
         'B': [1, ['3'], [100.0, 100.0, 100.0], [['A'], ['Z'], ['T']]]
     }
     obs = _generate_taxonomic_agreement_summary(self.otu_map2,
                                                 self.tax_map1, 3)
     self.assertFloatEqual(obs, exp)

Example #4

 def test_generate_taxonomic_agreement_summary_standard(self):
     """Test computing the taxonomic agreement for seqs in OTUs."""
     exp = {
         'A': [
             3, ['1', '2', '3'],
             [100.0, 66.66666666666666, 33.33333333333333],
             [['A'], ['B', 'Z'], ['C', 'D', 'T']]
         ]
     }
     obs = _generate_taxonomic_agreement_summary(self.otu_map1,
                                                 self.tax_map1, 3)
     self.assertFloatEqual(obs, exp)