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broadinstitute / seqr

web-based analysis tool for rare disease genomics
GNU Affero General Public License v3.0
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Use TDR to read metrics. #4292

Open lynnpais opened 3 months ago

lynnpais commented 3 months ago

Is your feature request related to a problem? Please describe. Reduce manual work during the data loading process.

Describe the solution you'd like Read metrics directly from TDR.

Describe alternatives you've considered NA Additional context Based on this morning's meeting. PMs will follow up on getting access to the TDR.

lynnpais commented 1 month ago

Update from Stacey Hall - seqr should now have access

bpblanken commented 1 month ago

@lynnpais Is it possible to track down an API route that I should use to request the file?

lynnpais commented 1 month ago

@shall48 would you be able to answer Ben's question or know someone in the TDR team to approach?

shall48 commented 1 month ago

Hi @lynnpais I can try to find out.

lynnpais commented 1 month ago

@bpblanken so that you are not blocked indefinitely, I looked into this a bit. Is any of this information helpful/ relevant?

How to ingest and update TDR data with APIs - https://support.terra.bio/hc/en-us/articles/4407166231963-How-to-ingest-and-update-TDR-data-with-APIs

How to create a TDR dataset with APIs - https://support.terra.bio/hc/en-us/articles/4407157465115-How-to-create-a-TDR-dataset-with-APIs

bpblanken commented 1 month ago

@lynnpais yes this does look helpful! I will take a look this afternoon to see if this can get us what we need.

lynnpais commented 1 month ago

Blocked on access and documentation.

shall48 commented 1 month ago

@lynnpais and @bpblanken I have not heard back on a good person to reach out to, but terra support may be able to help.