Python apply_variant_expression_filtersの例

コード例 #1

ファイル: test_variant_expression_filters.py プロジェクト: xflicsu/topiary

def test_apply_variant_transcript_expression_above_threshold():
    filtered = apply_variant_expression_filters(
        cancer_test_variants,
        gene_expression_dict=None,
        gene_expression_threshold=None,
        transcript_expression_dict=transcript_expression_dict,
        transcript_expression_threshold=0.5 * DEFAULT_FPKM)
    assert len(filtered) == len(cancer_test_variants), \
        "Expected %s variants but got %s" % (len(cancer_test_variants), len(filtered))

コード例 #2

ファイル: test_variant_expression_filters.py プロジェクト: Al3n70rn/topiary

def test_apply_variant_transcript_expression_above_threshold():
    filtered = apply_variant_expression_filters(
        cancer_test_variants,
        gene_expression_dict=None,
        gene_expression_threshold=None,
        transcript_expression_dict=transcript_expression_dict,
        transcript_expression_threshold=0.5 * DEFAULT_FPKM)
    assert len(filtered) == len(cancer_test_variants), \
        "Expected %s variants but got %s" % (len(cancer_test_variants), len(filtered))

コード例 #3

ファイル: test_variant_expression_filters.py プロジェクト: xflicsu/topiary

def test_apply_variant_transcript_expression_below_threshold():
    filtered = apply_variant_expression_filters(
        cancer_test_variants,
        gene_expression_dict=None,
        gene_expression_threshold=None,
        transcript_expression_dict=transcript_expression_dict,
        transcript_expression_threshold=2 * DEFAULT_FPKM)
    assert len(filtered) == 0, \
        "All variants should have been filtered out but got: %s" % (filtered,)

コード例 #4

ファイル: test_variant_expression_filters.py プロジェクト: Al3n70rn/topiary

def test_apply_variant_transcript_expression_below_threshold():
    filtered = apply_variant_expression_filters(
        cancer_test_variants,
        gene_expression_dict=None,
        gene_expression_threshold=None,
        transcript_expression_dict=transcript_expression_dict,
        transcript_expression_threshold=2 * DEFAULT_FPKM)
    assert len(filtered) == 0, \
        "All variants should have been filtered out but got: %s" % (filtered,)