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Remove human phenotypes that are not a descendant of phenotypic abnormality #14

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bryanlaraway opened this issue Aug 20, 2024 · 0 comments
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@bryanlaraway
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As part of the data pre-cleaning, need to remove any HPO terms from consideration that are not a descendant of phenotypic abnormality (inheritance, blood types, etc).

Steps:

  • Can either parse HPO directly from the Monarch KG or alternatively could download the latest version of HPO.json file, the latter of which might be preferred.
  • Generate the HPO graph and a list of descendants of phenotypic abnormality using NetworkX.
  • Filter HPO terms from considered phenotypes that are not within that list of descendants.
@bryanlaraway bryanlaraway self-assigned this Aug 20, 2024
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