SILVA 138.2 classifier

User Support
,
1

Hello there!

I wanted to ask if at any point there will be an upload of SILVA 138.2 classifiers (full-length, and/or for specific hypervariable regions) in the resources page (QIIME 2 Library). I'd prefer to train my own of course, but unfortunately I have space troubles. I used to train my classifiers on Galaxy but it seems that the new QIIME2 version (which is required for formatting SILVA 138.2 with Rescript, as older versions of Rescript don't accept "138.2" as input for the SILVA version) is not compatible with the version of QIIME2 on Galaxy!

Thanks for the help and good work everybody ^^

2

Hi @mari_lopes,

I've been able to construct a SILVA classifier just fine using usegalaxy.edu. Basically, on my laptop, I used RESCRIPt to download and curate the SILVA 138.2 database. Then I uploaded the sequence and taxonomy files to usegalaxy.edu and trained the classifier using qiime feature-classifier fit-classifier-naive-bayes ... (it looks like this function it is currently using QIIME 2 version 2025.4). Perhaps that'll work for you?

2 Likes
3

That may be it as I was on /cancer.usegalaxy.org! Thank you for the suggestion, I will try that.

1 Like