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Enhance Python code for subset extraction #34

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jamesaoverton opened this issue Apr 9, 2020 · 0 comments
Open

Enhance Python code for subset extraction #34

jamesaoverton opened this issue Apr 9, 2020 · 0 comments

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@jamesaoverton
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The current code in #30 can be configured to generate only classes with a given set of tax_ids. By adding one more pass through nodes.dmp we could find all the ancestors of a given set of tax_ids, then generate a subset from that. I expect that would be more efficient than extracting from .obo like this https://github.com/obophenotype/ncbitaxon/blob/master/subsets/Makefile#L8

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