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kfuku52 / amalgkit

RNA-seq data amalgamation for a large-scale evolutionary transcriptomics
BSD 3-Clause "New" or "Revised" License
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Suggested annotation by Zooma #67

Closed kfuku52 closed 1 year ago

kfuku52 commented 2 years ago

There is an API so programmatic access should be straightforward. https://www.ebi.ac.uk/spot/zooma/docs/api

Hego-CCTB commented 2 years ago

that'll do!

My approach would be to have Zooma in addition to the config (as an option), but prefer config entries over Zooma in cases of overlap.

kfuku52 commented 2 years ago

That sounds good. Manual curation/confirmation is unavoidable anyway, but the suggested curation would greatly help.

kfuku52 commented 1 year ago

Should we discontinue this?

Hego-CCTB commented 1 year ago

Yeah. I have tried using the API, but I can't get it to work properly. I can send queries, but I can't get the results as we need it.

kfuku52 commented 1 year ago

Should we discontinue this, or do you want to continue it?

Hego-CCTB commented 1 year ago

I think we should discontinue. This would be at the bottom of my priorities regarding amalgkit and even if implemented, Zooma can still be very wrong and still needs human supervision after annotation.

kfuku52 commented 1 year ago

OK!