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monarch-initiative / genophenocorr

Genotype Phenotype Correlation
https://monarch-initiative.github.io/genophenocorr/stable
MIT License
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Move phenopacket generating code to phenopacket store #90

Closed pnrobinson closed 6 months ago

pnrobinson commented 8 months ago

I will move the generation to phenopacket store, because then it is easier to reuse the phenopackets for multiple projects. To do so, I will create and check the phenopackets with the updated code and then make a PR that will add the "new" phenopackets to the input folder and delete the phenopacket generation notebook (which I will move and adapt to phenopacket store). @lnrekerle @ielis -- please shout if there is a better way of doing things!

ielis commented 8 months ago

Sounds good! :+1:

ielis commented 6 months ago

Related to #46

When #46 is done, I expect to see ~4 notebooks that perform genotype-phenotype correlation analysis. The notebooks use phenopackets that are committed to genophenocorr repository. The phenopackets correspond to certain version of the cohort within the phenopacket-store. In other words, we will freeze the cohort and disregard any future updates made in phenopacket-store, to simplify demonstration of the GP analysis.

ielis commented 6 months ago

Done