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raw-lab / MetaCerberus

Python code for versatile Functional Ontology Assignments for Metagenomes searching via Hidden Markov Model (HMM) with environmental focus of shotgun metaomics data
BSD 3-Clause "New" or "Revised" License
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Adding FesNov DB #16

Closed giacomomutti closed 3 months ago

giacomomutti commented 4 months ago

Hey devs! First of all, thanks for this amazing tool! I was wondering if besides eggnog you could add the FesNov gene families database (made from the same group of eggnog). In theory it should be possible to download it from here but this link is not working for me today. Alternatively, the HMMs can be found here.

Thank you very much!

raw-lab commented 3 months ago

Thank you for your interest in MetaCerberus. Sorry for the delay. We have had a major update in 1.3. Tons of new databases. We are curious what these families provide? You can run a custom HMM in 1.3 version. It will be released in BioConda in a couple of days or you can do a manual install.

many thanks, RAW lab

Closing for now. Let us know if we can make a custom hmm etc for you?

giacomomutti commented 3 months ago

Thank you for the reply! The new option looks very useful, I will test it and let you know. The FesNov gene families should represent novel gene families from uncultivated prokaryotic taxa, so I thought it would be definitely interesting to annotate a metagenome with them.