Colocalisation

gentropy.dataset.colocalisation.Colocalisation dataclass

Bases: Dataset

Colocalisation results for pairs of overlapping study-locus.

Source code in src/gentropy/dataset/colocalisation.py

@dataclass
class Colocalisation(Dataset):
    """Colocalisation results for pairs of overlapping study-locus."""

    @classmethod
    def get_schema(cls: type[Colocalisation]) -> StructType:
        """Provides the schema for the Colocalisation dataset.

        Returns:
            StructType: Schema for the Colocalisation dataset
        """
        return parse_spark_schema("colocalisation.json")

get_schema() -> StructType classmethod

Provides the schema for the Colocalisation dataset.

Returns:

Name	Type	Description
StructType	StructType	Schema for the Colocalisation dataset

Source code in src/gentropy/dataset/colocalisation.py

@classmethod
def get_schema(cls: type[Colocalisation]) -> StructType:
    """Provides the schema for the Colocalisation dataset.

    Returns:
        StructType: Schema for the Colocalisation dataset
    """
    return parse_spark_schema("colocalisation.json")

Schema

root
 |-- leftStudyLocusId: long (nullable = false)
 |-- rightStudyLocusId: long (nullable = false)
 |-- chromosome: string (nullable = false)
 |-- colocalisationMethod: string (nullable = false)
 |-- numberColocalisingVariants: long (nullable = false)
 |-- h0: double (nullable = true)
 |-- h1: double (nullable = true)
 |-- h2: double (nullable = true)
 |-- h3: double (nullable = true)
 |-- h4: double (nullable = true)
 |-- log2h4h3: double (nullable = true)
 |-- clpp: double (nullable = true)

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• 2023-01-20
• 2024-01-18
• Contributors
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