Extract Reference Reads-16S- Choosing Appropiatefile

Hello,

I have a question regarding training the feature classifier for 16s data. I have never worked with a bacteria dataset and so I am confused on which files to use. I have downloaded the Silva_132 Qiime files, but there are a variety of files so I am unsure on which one to choose. I thought I would use the raw data or the rep-set (16s, given my data), but I am honestly unsure.

I did see that you guys have a pre-trained classifier, but if I use this, then I would be skipping the “Extract reference reads” step that is recommended. Do you have any advice for me?

There is a pre-trained classifier that uses the commonly used 515f-806r primers. You can use that if that is your target region.

Otherwise…

rep_set/rep_set_16s_only/99/

and the corresponding taxonomy file

1 Like

This topic was automatically closed 31 days after the last reply. New replies are no longer allowed.