Madison_enums_sample_host.json

[DianaSpurite]

adding Rana pipiens

Pull Request

This PR is for a

• New Publication(s)
• Correction

For the following list(s):

• ancientmetagenome-environmental (README)
• ancientmetagenome-hostassociated (README)
• ancientsinglegenome-hostassociated (README)

New Publication

Publication Information

This pull request is to add samples from the following publication(s):

This is to close

Checklist

• Publication is published (preprints currently not accepted)?
• Checked the publication is not already in the database?
• Checked samples in this publication are not previously published data (newly re-sequenced metagenomes are OK!)?
• Samples are shotgun metagenomes (hostassociated-singlegenome may also contain whole-genome enriched data)?
• 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)?
• 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:

[github-actions]

AMDirT, version 1.4.6

Samples

Ancient Metagenome Host Associated

ancientmetagenome-hostassociated_samples.tsv is valid

Ancient Single Genome Host Associated

ancientsinglegenome-hostassociated_samples.tsv is valid

Ancient Metagenome Environmental

ancientmetagenome-environmental_samples.tsv is valid

Libraries

Ancient Metagenome Host Associated

ancientmetagenome-hostassociated_libraries.tsv is valid

Ancient Single Genome Host Associated

ancientsinglegenome-hostassociated_libraries.tsv is valid

Ancient Metagenome Environmental

ancientmetagenome-environmental_libraries.tsv is valid

[jfy133]

Could you check this by searching NCBI taxonomy? I can't find it on a brief search...

[DianaSpurite]

ould you check this by searching NCBI taxonomy? I can't fi

I don't exactly understand what you mean.. I went on the NCBI and found this: https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=8404

[jfy133]

Ahh, ok Rana pipen is the old name (basionym) - you should use the new one as on the page :)

[DianaSpurite]

Ahh, ok Rana pipen is the old name (basionym) - you should use the new one as on the page :)

Which is the new one - Pantherana pipiens?

[DianaSpurite]

Ahh, ok Rana pipen is the old name (basionym) - you should use the new one as on the page :)

Lithobates pipiens (Schreber, 1782), basionym: Rana pipiens Schreber, 1782

[jfy133]

Lithobates pipiens 👍

[github-actions]

AMDirT, version 1.4.6

Samples

Ancient Metagenome Host Associated

ancientmetagenome-hostassociated_samples.tsv is valid

Ancient Single Genome Host Associated

ancientsinglegenome-hostassociated_samples.tsv is valid

Ancient Metagenome Environmental

ancientmetagenome-environmental_samples.tsv is valid

Libraries

Ancient Metagenome Host Associated

ancientmetagenome-hostassociated_libraries.tsv is valid

Ancient Single Genome Host Associated

ancientsinglegenome-hostassociated_libraries.tsv is valid

Ancient Metagenome Environmental

ancientmetagenome-environmental_libraries.tsv is valid