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monarch-initiative / monarch-ingest

Data ingest application for Monarch Initiative knowledge graph using Koza
https://monarchinitiative.org
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Add gene2ensemble to monarch-ingest downloads for ENSEMBL:ENSGAL #333

Closed amc-corey-cox closed 2 years ago

amc-corey-cox commented 2 years ago

add https://ftp.ncbi.nih.gov/gene/DATA/gene2ensembl.gz to downloads.yaml the monarch-ingest repo.

monarch-initiative/monarch-gene-mapping#4

kevinschaper commented 2 years ago

We're right on the edge of transitioning from generating the mapping as part of the monarch-ingest, to generating it as it's own job and just downloading the gene-mapping, so depending on the order of when things land, this might not end up being necessary.

(but I should make an issue for downloading the gene mapping file!)

amc-corey-cox commented 2 years ago

Created a new function to create mappings from ensembl2gene. Added ensembl2gene to downloads.yaml

Function is abstracted so should allow us to bring in other taxonomies if there are valuable.