import pyhpo
from pyhpo.parser import diseases
from pyhpo.parser import genes
[docs]def build_ontology_annotations(
data_folder: str,
ontology: 'pyhpo.OntologyClass'
) -> None:
"""
Builds all annotations and associated genes and diseases
to the HPO terms in the Ontology.
Parameters
----------
data_folder:
The full path to the folder that contains the master data files
ontology:
The ontology of HPO terms
"""
genes._parse_phenotype_to_gene_file(data_folder)
genes._add_genes_to_ontology(ontology)
diseases._parse_phenotype_hpoa_file(data_folder)
diseases._add_decipher_to_ontology(ontology)
diseases._add_omim_to_ontology(ontology)
diseases._add_orpha_to_ontology(ontology)