Preparing SILVA 138 rep seqs

[HIROSUKE]

Hi,

I would like to make 97% and 99% OTU data sets derived from SILVA 138 data for using “feature-classifier fit-classifier-naive-bayes” command. How should I do to make the OTU data sets? Shoud I use any other tools to align and annotate the sequences?

[SoilRotifer (Mike Robeson)]

Hi @HIROSUKE,

We’ll have some more news about this near the end of the month. For now, please take a look at this and other related SILVA 138 related forum threads:

SILVA 138 Classifiers

I just wanted to let everyone be aware that I’ve hobbled together a simple pipeline for constructing classifiers based on the SILVA 138 release. I’ve been working on this as time permits, so I apologize in advance for the short-cuts and clunkiness of my approach, but I figured this would be something useful for the community. At least in the short-term . Anyway, the files will be temporarily available here, until I can find a longer-term hosting solution: EM…

Also, there is no need to make a 97% classifier, unless you are limited by memory and storage space.

-Mike