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EBI-Metagenomics / HoloFoodR

R interface for HoloFood resource
https://ebi-metagenomics.github.io/HoloFoodR/
Artistic License 2.0
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Additional genome features in v1.1 of HoloFood portal #30

Closed SandyRogers closed 1 month ago

SandyRogers commented 3 months ago

The latest release of the HoloFood data portal includes two new features which may be interesting to integrate into HoloFoodR:

  1. Genomes now have CAZyme annotations available directly via the HoloFood API: docs
  2. Genomes now have a relationship to samples, based on the presence of (some of) each genome's sequences in samples. This is essentially a pre-computed search / a map, rather than a live search feature docs

There are new API endpoints for these features, which work in much the same way as the existing endpoints from v1.0.

TuomasBorman commented 3 months ago

Thank you! I will take a closer look when time allows

-Tuomas

TuomasBorman commented 1 month ago

Thanks! The package was already working / it already fetched those endpoints. I improved the documentation so that user can find them from the output.