本文整理匯總了Python中oncotator.input.VcfInputMutationCreator.VcfInputMutationCreator.getMetadata方法的典型用法代碼示例。如果您正苦於以下問題：Python VcfInputMutationCreator.getMetadata方法的具體用法？Python VcfInputMutationCreator.getMetadata怎麽用？Python VcfInputMutationCreator.getMetadata使用的例子？那麽, 這裏精選的方法代碼示例或許可以為您提供幫助。您也可以進一步了解該方法所在類oncotator.input.VcfInputMutationCreator.VcfInputMutationCreator的用法示例。
在下文中一共展示了VcfInputMutationCreator.getMetadata方法的2個代碼示例，這些例子默認根據受歡迎程度排序。您可以為喜歡或者感覺有用的代碼點讚，您的評價將有助於係統推薦出更棒的Python代碼示例。
示例1: testDuplicateAnnotationMetaData
# 需要導入模塊: from oncotator.input.VcfInputMutationCreator import VcfInputMutationCreator [as 別名]
# 或者: from oncotator.input.VcfInputMutationCreator.VcfInputMutationCreator import getMetadata [as 別名]
def testDuplicateAnnotationMetaData(self):
"""
Tests that the metadata is populated correctly in cases where duplicate annotations are present in the input VCF
file.
"""
inputFilename = os.path.join(*["testdata", "vcf", "example.duplicate_annotation.vcf"])
creator = VcfInputMutationCreator(inputFilename)
md = creator.getMetadata()
self.assertTrue("variant_status" in md, "variant_status field is missing in metadata.")
self.assertTrue("sample_variant_status" in md, "sample_variant_status is missing in metadata.")示例2: testGetMetaDataWithNoSampleNameExampleVcf
# 需要導入模塊: from oncotator.input.VcfInputMutationCreator import VcfInputMutationCreator [as 別名]
# 或者: from oncotator.input.VcfInputMutationCreator.VcfInputMutationCreator import getMetadata [as 別名]
def testGetMetaDataWithNoSampleNameExampleVcf(self):
"""
Tests to ensure that the metadata can be retrieved even before createMutations has been called.
"""
inputFilename = os.path.join(*["testdata", "vcf", "example.sampleName.removed.vcf"])
creator = VcfInputMutationCreator(inputFilename)
gtKeys = {'genotype', 'read_depth', 'genotype_quality', 'haplotype_quality', 'q10', 's50', 'samples_number',
'depth_across_samples', 'allele_frequency', 'ancestral_allele', 'dbSNP_membership', 'id', 'qual',
'hapmap2_membership'}
md = creator.getMetadata()
ks = set(md.keys())
diff = gtKeys.symmetric_difference(ks)
self.assertTrue(len(diff) == 0, "Missing keys that should have been seen in the metadata: " + str(diff))