Taxonomy assignment and rarefying


(Michal Lichvar) #1

Hello

what should I do, if I want to assign taxonomy, but do not want to subsample (rarefy)?

Now, qiime taxa barplot requires rarefield table as input. Is there another a way to perform taxa barplot without rarefaction step?

Rdgs
Michal Lichvar


Taxonomic analysis could not exclude samples with lower sampling depths
(Nicholas Bokulich) #2

Hi @michal.lichvar,

That method does NOT require a rarefied table as input. On the contrary, I would discourage using a rarefied table for creating taxonomy barplots, unless if you explicitly want to see what taxa are present after rarefying.

Where did you get that idea from? Please point to a section of the documentation if it is giving this impression.

Thanks!


(Michal Lichvar) #3

I really don’t know now :slight_smile:

looks like a made mistake when implemeting Moving picture tutorial :frowning:

Thank you for quick answer.