Support for non-Refseq genes

[pentamorfico]

Hi, first of all thanks for this amazing tool, it's making bionformaticians lives way easier!

I'm currently using NCBI datasets (datasets download gene accession) to download proteins from Bacteria and Archaea, and extract metadata. I would like to expand the search to proteins only available in GenBank, but this is not supported yet.

Is this a feature that you plan to add anytime soon? Is there any way that I can help with this?

Best,
Mario

[olearyna]

Hi,

Thanks so much for your kind words about the tool! We’re happy to hear it’s making your work easier.

Thank you for the suggestion about adding support for proteins only available in GenBank. While we don’t have plans to add this feature right now, we’re focusing on improving gene access in 2025, and we’ll keep your suggestion in mind as we plan future updates.

In the meantime, you can use eDirect to get metadata for GenBank accessions. For example, you can run this command:
esearch -db protein -query "YOUR_ACCESSION" | efetch -format docsum
Here is the documentation https://www.ncbi.nlm.nih.gov/books/NBK179288/.

Best,
Nuala