Models¶
KEGG database models.
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class
bio2bel_kegg.models.Pathway(**kwargs)[source]¶ Pathway Table.
A simple constructor that allows initialization from kwargs.
Sets attributes on the constructed instance using the names and values in
kwargs.Only keys that are present as attributes of the instance’s class are allowed. These could be, for example, any mapped columns or relationships.
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kegg_id¶ KEGG id of the pathway
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name¶ pathway name
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serialize_to_pathway_node() → pybel.dsl.node_classes.BiologicalProcess[source]¶ Serialize to PyBEL node data dictionary.
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get_gene_set() → Set[bio2bel_kegg.models.Protein][source]¶ Return the genes associated with the pathway (gene set).
Note this function restricts to HGNC symbols genes.
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property
resource_id¶ Return kegg identifier.
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property
url¶ Return url pointing to kegg pathway.
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class
bio2bel_kegg.models.Protein(**kwargs)[source]¶ Genes Table.
A simple constructor that allows initialization from kwargs.
Sets attributes on the constructed instance using the names and values in
kwargs.Only keys that are present as attributes of the instance’s class are allowed. These could be, for example, any mapped columns or relationships.
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kegg_id¶ KEGG id of the protein
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uniprot_id¶ uniprot id of the protein (there could be more than one)
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hgnc_id¶ hgnc id of the protein
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hgnc_symbol¶ hgnc symbol of the protein
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