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ersilia-os / pharmacogx-embeddings

Pharmacogenomics knowledge graph embeddings and related analyses
GNU General Public License v3.0
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Add biogeographical groups into relationship table #11

Closed GemmaTuron closed 1 year ago

GemmaTuron commented 1 year ago

The Biogeographical groups are inside study_parameters. These are now added to the var_pheno_ann and var_drug_ann files (deduplicated if more than study was done per annotation) There is an extra file with manually curated biogroup - association id that potentially deconvolutes the biogroups in the 7 defined by pharmgkb. If we use it, manual curation should be revised (see functions to incorporate that in study_parameters.py)

GemmaTuron commented 1 year ago

We will leave the BioG as they are at the moment and will reopen this if we need better refinement