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Python GeminiPlugin.variants方法代碼示例

本文整理匯總了Python中puzzle.plugins.GeminiPlugin.variants方法的典型用法代碼示例。如果您正苦於以下問題:Python GeminiPlugin.variants方法的具體用法?Python GeminiPlugin.variants怎麽用?Python GeminiPlugin.variants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puzzle.plugins.GeminiPlugin的用法示例。


在下文中一共展示了GeminiPlugin.variants方法的15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: test_filters_impact_severities

# 需要導入模塊: from puzzle.plugins import GeminiPlugin [as 別名]
# 或者: from puzzle.plugins.GeminiPlugin import variants [as 別名]
 def test_filters_impact_severities(self, gemini_path):
     adapter = GeminiPlugin(db=gemini_path)
     filters = {'impact_severities':['HIGH']}
     variants = []
     for variant in adapter.variants('643594', filters=filters):
         variants.append(variant)
     assert len(variants) == 2
開發者ID:J35P312,項目名稱:PuzzleWin,代碼行數:9,代碼來源:test_variant_mixin.py

示例2: test_filters_cadd

# 需要導入模塊: from puzzle.plugins import GeminiPlugin [as 別名]
# 或者: from puzzle.plugins.GeminiPlugin import variants [as 別名]
 def test_filters_cadd(self, gemini_path):
     adapter = GeminiPlugin(db=gemini_path)
     filters = {'cadd':'20'}
     variants = []
     for variant in adapter.variants('643594', filters=filters):
         variants.append(variant)
     assert len(variants) == 4
開發者ID:J35P312,項目名稱:PuzzleWin,代碼行數:9,代碼來源:test_variant_mixin.py

示例3: test_filters_gene_ids

# 需要導入模塊: from puzzle.plugins import GeminiPlugin [as 別名]
# 或者: from puzzle.plugins.GeminiPlugin import variants [as 別名]
 def test_filters_gene_ids(self, gemini_path):
     adapter = GeminiPlugin(db=gemini_path)
     filters = {'gene_ids':['HLA-DRB5']}
     variants = []
     for variant in adapter.variants('643594', filters=filters):
         variants.append(variant)
     assert len(variants) == 5
開發者ID:J35P312,項目名稱:PuzzleWin,代碼行數:9,代碼來源:test_variant_mixin.py

示例4: test_filters_consequence

# 需要導入模塊: from puzzle.plugins import GeminiPlugin [as 別名]
# 或者: from puzzle.plugins.GeminiPlugin import variants [as 別名]
 def test_filters_consequence(self, gemini_path):
     adapter = GeminiPlugin(db=gemini_path)
     filters = {'consequence':['stop_gained']}
     variants = []
     for variant in adapter.variants('643594', filters=filters):
         variants.append(variant)
     assert len(variants) == 2
開發者ID:J35P312,項目名稱:PuzzleWin,代碼行數:9,代碼來源:test_variant_mixin.py

示例5: test_filters_frequency

# 需要導入模塊: from puzzle.plugins import GeminiPlugin [as 別名]
# 或者: from puzzle.plugins.GeminiPlugin import variants [as 別名]
 def test_filters_frequency(self, gemini_path):
     adapter = GeminiPlugin(db=gemini_path)
     filters = {'frequency':'0.01'}
     variants = []
     for variant in adapter.variants('643594', filters=filters):
         variants.append(variant)
     assert len(variants) == 13
開發者ID:J35P312,項目名稱:PuzzleWin,代碼行數:9,代碼來源:test_variant_mixin.py

示例6: test_get_all_variants

# 需要導入模塊: from puzzle.plugins import GeminiPlugin [as 別名]
# 或者: from puzzle.plugins.GeminiPlugin import variants [as 別名]
def test_get_all_variants(gemini_path):
    """Test to get some variants from the gemini adapter"""
    adapter = GeminiPlugin(db=gemini_path)
    variants = []
    for variant in adapter.variants('643594'):
        variants.append(variant)

    assert len(variants) == 14
開發者ID:J35P312,項目名稱:PuzzleWin,代碼行數:10,代碼來源:test_variant_mixin.py

示例7: test_no_filters_sv

# 需要導入模塊: from puzzle.plugins import GeminiPlugin [as 別名]
# 或者: from puzzle.plugins.GeminiPlugin import variants [as 別名]
    def test_no_filters_sv(self, gemini_sv_case_obj):
        plugin = GeminiPlugin()
        plugin.add_case(gemini_sv_case_obj)

        filters = {}
        result = plugin.variants('hapmap', filters=filters, count=1000)
        variants = result.variants
        nr_of_variants = result.nr_of_variants
        
        assert nr_of_variants == 513
開發者ID:J35P312,項目名稱:puzzle,代碼行數:12,代碼來源:test_gemini_variant_mixin.py

示例8: test_filters_no_filters

# 需要導入模塊: from puzzle.plugins import GeminiPlugin [as 別名]
# 或者: from puzzle.plugins.GeminiPlugin import variants [as 別名]
    def test_filters_no_filters(self, gemini_case_obj):
        plugin = GeminiPlugin()
        plugin.add_case(gemini_case_obj)

        filters = {}
        result = plugin.variants('643594', filters=filters, count=1000)
        variants = result.variants
        nr_of_variants = result.nr_of_variants

        assert nr_of_variants == 14
開發者ID:J35P312,項目名稱:puzzle,代碼行數:12,代碼來源:test_gemini_variant_mixin.py

示例9: test_get_all_variants

# 需要導入模塊: from puzzle.plugins import GeminiPlugin [as 別名]
# 或者: from puzzle.plugins.GeminiPlugin import variants [as 別名]
def test_get_all_variants(gemini_case_obj):
    """Test to get some variants from the gemini adapter"""
    plugin = GeminiPlugin()
    plugin.add_case(gemini_case_obj)

    filters = {}
    result = plugin.variants('643594', filters=filters, count=1000)
    variants = result.variants
    nr_of_variants = result.nr_of_variants

    assert nr_of_variants == 14
開發者ID:J35P312,項目名稱:puzzle,代碼行數:13,代碼來源:test_gemini_variant_mixin.py

示例10: test_filters_impact_severities_medium

# 需要導入模塊: from puzzle.plugins import GeminiPlugin [as 別名]
# 或者: from puzzle.plugins.GeminiPlugin import variants [as 別名]
    def test_filters_impact_severities_medium(self, gemini_case_obj):
        plugin = GeminiPlugin()
        plugin.add_case(gemini_case_obj)

        filters = {'impact_severities':['MEDIUM']}
        result = plugin.variants('643594', filters=filters, count=1000)
        variants = result.variants
        nr_of_variants = result.nr_of_variants
        
        for variant_obj in variants:
            assert variant_obj.impact_severity == 'MEDIUM'
        assert nr_of_variants == 10
開發者ID:J35P312,項目名稱:puzzle,代碼行數:14,代碼來源:test_gemini_variant_mixin.py

示例11: test_filters_cadd

# 需要導入模塊: from puzzle.plugins import GeminiPlugin [as 別名]
# 或者: from puzzle.plugins.GeminiPlugin import variants [as 別名]
    def test_filters_cadd(self, gemini_case_obj):
        plugin = GeminiPlugin()
        plugin.add_case(gemini_case_obj)

        filters = {'cadd':'20'}
        result = plugin.variants('643594', filters=filters, count=1000)
        variants = result.variants
        nr_of_variants = result.nr_of_variants
        
        for variant_obj in variants:
            assert variant_obj.cadd_score > 20
        
        assert nr_of_variants == 4
開發者ID:J35P312,項目名稱:puzzle,代碼行數:15,代碼來源:test_gemini_variant_mixin.py

示例12: test_filters_gene_ids

# 需要導入模塊: from puzzle.plugins import GeminiPlugin [as 別名]
# 或者: from puzzle.plugins.GeminiPlugin import variants [as 別名]
    def test_filters_gene_ids(self, gemini_case_obj):
        plugin = GeminiPlugin()
        plugin.add_case(gemini_case_obj)

        filters = {'gene_ids':['HLA-DRB5']}
        result = plugin.variants('643594', filters=filters, count=1000)
        variants = result.variants
        nr_of_variants = result.nr_of_variants
        
        for variant_obj in variants:
            assert 'HLA-DRB5' in variant_obj.gene_symbols
        
        assert nr_of_variants == 5
開發者ID:J35P312,項目名稱:puzzle,代碼行數:15,代碼來源:test_gemini_variant_mixin.py

示例13: test_filters_consequence

# 需要導入模塊: from puzzle.plugins import GeminiPlugin [as 別名]
# 或者: from puzzle.plugins.GeminiPlugin import variants [as 別名]
    def test_filters_consequence(self, gemini_case_obj):
        plugin = GeminiPlugin()
        plugin.add_case(gemini_case_obj)

        filters = {'consequence':['stop_gained']}
        result = plugin.variants('643594', filters=filters, count=1000)
        variants = result.variants
        nr_of_variants = result.nr_of_variants
        
        for variant_obj in variants:
            assert 'stop_gained' in variant_obj.consequences
        
        assert nr_of_variants == 2
開發者ID:J35P312,項目名稱:puzzle,代碼行數:15,代碼來源:test_gemini_variant_mixin.py

示例14: test_filters_sv_len

# 需要導入模塊: from puzzle.plugins import GeminiPlugin [as 別名]
# 或者: from puzzle.plugins.GeminiPlugin import variants [as 別名]
    def test_filters_sv_len(self, gemini_sv_case_obj):
        plugin = GeminiPlugin()
        plugin.add_case(gemini_sv_case_obj)

        filters = {'sv_len':'800'}
        result = plugin.variants('hapmap', filters=filters, count=1000)
        variants = result.variants
        nr_of_variants = result.nr_of_variants
        
        for variant_obj in variants:
            assert variant_obj.sv_len >= 800
        
        assert nr_of_variants == 176
開發者ID:J35P312,項目名稱:puzzle,代碼行數:15,代碼來源:test_gemini_variant_mixin.py

示例15: test_filters_frequency

# 需要導入模塊: from puzzle.plugins import GeminiPlugin [as 別名]
# 或者: from puzzle.plugins.GeminiPlugin import variants [as 別名]
    def test_filters_frequency(self, gemini_case_obj):
        plugin = GeminiPlugin()
        plugin.add_case(gemini_case_obj)

        filters = {'frequency':'0.01'}
        result = plugin.variants('643594', filters=filters, count=1000)
        variants = result.variants
        nr_of_variants = result.nr_of_variants
        
        for variant_obj in variants:
            assert variant_obj.max_freq < 0.01
        
        assert nr_of_variants == 13
開發者ID:J35P312,項目名稱:puzzle,代碼行數:15,代碼來源:test_gemini_variant_mixin.py


注:本文中的puzzle.plugins.GeminiPlugin.variants方法示例由純淨天空整理自Github/MSDocs等開源代碼及文檔管理平台,相關代碼片段篩選自各路編程大神貢獻的開源項目,源碼版權歸原作者所有,傳播和使用請參考對應項目的License;未經允許,請勿轉載。