Kirdok 2023

[AnnaEWhite]

Pull Request

This PR is for a

• [x] New Publication(s)
• [ ] Correction

For the following list(s):

• [ ] ancientmetagenome-environmental (README)
• [x] ancientmetagenome-hostassociated (README)
• [ ] ancientsinglegenome-hostassociated (README)

Publication Information

This is to close #1134

Checklist (New publications)

• [x] Publication is published
  • Preprints currently not accepted?
• [x] Checked the publication is not already in the database?
• [x] Checked samples in this publication are not previously published data?
  • Newly re-sequenced metagenomes are OK!
• [x] Samples are shotgun metagenomes and not amplicon data
  • Note: hostassociated-singlegenome may also contain whole-genome enriched data
• [x] Checked the list follows conventions as described in the corresponding sample type's README file (e.g. using ERS/SRS accession codes for ENA/SRA)?
• [x] Library metadata has been added
  • Use @spaam-bot please autofill <table_name> <project_id> to get a half-filled template! May take a minute or so to get the comment with the file
  • Fill in template, and verify autofill data correct!
  • Once filled in, append(!) the new rows to the end of the corresponding library metadata file
• [ ] Changelog is updated to include the publication under 'Added'?
• [ ] Pull request has passed validation checks (see automated comment from github-bot)?
• [ ] Review requested from @SPAAM-community/ancientmetagenomedir?
• [ ] (If applicable) Made a separate PR to add new categories to controlled lists (stored under /assets/enums, e.g. material or archive)? If so the corresponding PR is here:

[jfy133]

@spaam-bot please autofill ancientmetagenome-hostassociated Kirdok2023

[github-actions[bot]]

Autofill success! 🎉

Autofill log:

AMDirT [INFO]: ancientmetagenome-hostassociated_libraries.tsv is valid AMDirT [INFO]: ENA API is up AMDirT [WARNING]: No results found AMDirT [WARNING]: No results found AMDirT [WARNING]: No results found AMDirT [INFO]: Found 0 libraries AMDirT [INFO]: Writing libraries metadata to TEMPLATE_Kirdok2023_ancientmetagenome-hostassociated_libraries.tsv

Download the attempted autofilled library file by pressing this link.

You can now fill in the remainder of the columns, and append to the end of the corresponding library file. Please remember this service attempts to pull relevant metadata from the ENA, but metadata is not always correct!

[!WARNING] Always check accuracy of pre-filled columns before adding to the library table!