Exemple #1
0
 def test_genotypes_snp_as_homozygous_when_supported_by_15_reads_out_of_16(
         self):
     self.calls_variants_with_sample_data(
         "AAAAAAAAAAACGCACCCCCCATAAAAAAAATTTTTTTTTTT",  # input
         [
             ".....................C....................",
             ".....................C....................",
             ".....................C....................",
             ".....................C....................",
             ".....................C....................",
             "..........................................",
             ".....................C....................",
             ".....................C....................",
             ".....................C....................",
             ".....................C....................",
             ".....................C....................",
             ".....................C....................",
             ".....................C....................",
             ".....................C....................",
             ".....................C....................",
             ".....................C...................."
         ],
         [(21, "A", "C", {
             "GT": GT("1/1"),
             "GQ": [7],
             "DP": [16],
             "AD": [1, 15]
         })])
Exemple #2
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 def test_genotypes_one_base_deletion_as_homozygous_when_supported_by_5_reads_out_of_5(
         self):
     self.calls_variants_with_sample_data(
         "AAAAAAAAAAACGCACCCCCCATAAAAAAAATTTTTTTTTTT",  # input
         [
             ".....................*....................",
             ".....................*....................",
             ".....................*....................",
             ".....................*....................",
             ".....................*...................."
         ],
         [(20, "CA", "C", {
             "GT": GT("1/1"),
             "DP": [5],
             "AD": [0, 5]
         })])
Exemple #3
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 def test_genotypes_snp_as_heterozygous_when_supported_by_4_reads_out_of_5(
         self):
     self.calls_variants_with_sample_data(
         "AAAAAAAAAAACGCACCCCCCATAAAAAAAATTTTTTTTTTT",  # input
         [
             "..........................................",
             ".....................C....................",
             ".....................C....................",
             ".....................C....................",
             ".....................C...................."
         ],
         [(21, "A", "C", {
             "GT": GT("1/0"),
             "GQ": [27],
             "DP": [5],
             "AD": [1, 4]
         })])