Running Cayman on environment samples?

[Jigyasa3]

Hi,

Thank you for a great resource for CAZyme annotation and substrate prediction. I was wondering since the annotation is trained on human gut microbiome (GMGC), would you recommend running it on environmental microbiome data?

Looking forward to your response,
Regards,
Jigyasa

[cschu]

Hi Jigyasa, thanks for your interest in Cayman. In general, it is possible to run this on any of the GMGC subcatalogues (or, theoretically, any microbial gene catalogue for that matter), as long as they have been annotated. We have some GMGC subcatalogue annotations available, however it seems at the moment the link is not accessible. I hope we can restore that access asap.

Best,
Christian

[karchern]

Hi, indeed the Zenodo link was broken but it should be fixed with the new PR.

As Christian said we have annotated non-human-gut gene catalogues. Here's a link to the gene cataloguegene_catalogues.zip and the annotations for profilinng