View the Project on GitHub COG-UK/docs

Updated 2022-01-14 by @samstudio8

Automated GISAID submissions

Sequencing sites can opt-in to a process where consensus sequences uploaded to CLIMB that pass high quality QC are automatically submitted to GISAID on their behalf.

How do I opt-in?

You can opt-in via your Institute profile on Majora. One only user per site needs to provide this information and it does not need to be the same person who provides the metadata or uploads the sequences. You will need to provide:

You will also need to contact GISAID and let them know you wish to allow the COG-UK consortium user to submit sequences on your behalf.

How does it work?

Bulk uploads are automatically generated at 12:30 (BST, not adjusted during winter) every working day (Mon - Fri) and will release all new seqeunces that passed high quality QC. Samples are uploaded 3 days after they are ingested into the CLIMB-COVID dataset.

Do I have to do anything?

You should periodically check the “My Unreleased” tab on the GISAID website. Curators will flag sequences with frameshifts and other quality artefacts for you to approve before they are made public, we do not control this process.


Published 2020-04-15. Updated 2022-01-14. Page maintainer @samstudio8.