Wphu/make remap tsv - Githubissues

broadinstitute / tgg_methods

Repo for miscellaneous methods developed by the methods group that don't fit anywhere else

MIT License

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Wphu/make remap tsv #38

Closed williamphu closed 4 months ago

williamphu commented 2 years ago

I made this script to create seqr remap files, after the Neurodev WES project had over 600 samples to remap, and there was no easy way to take the output from airtable, and format it into columns.

However this probably will be a pointless script once the automatic remapping happens as part of Avery's work.

mike-w-wilson commented 2 years ago

As I said in a previous comment, I think this is still worth using for now. Alternatively you could get a jump on hitting airtable's API to build the remap using Avery's subset code as a template (https://github.com/broadinstitute/seqr-pipeline-airflow/blob/756fd1777b45b23548429be0bca22fb6964353d3/airflow/dags/seqr-vcf-to-es.py#L337) and implement that in this script but that's some decent engineering time for sure.

mike-w-wilson commented 4 months ago

This is no longer needed.