Can I use Qiime2 to analyze eukaryotic 16s (rRNA mt DNA) metabarcode data?

[Sheriru (Cheryl)]

I have eukaryote 16S metabarcoding data in the form of amplicons from environmental samples, and top BLAST results from NCBI nt.
will Qiime2 be able to do OTU clustering and filtering on these samples? Or do you know of a software that can handle them?
Thank you.

[colinbrislawn (Colin J Brislawn)]

Hello Cheryl,

Maybe! Can you tell me more about the files you have? Do you have fastq files or fasta files? Do they match the input files listed inside the tutorials?
https://docs.qiime2.org/2018.6/tutorials/moving-pictures/
https://docs.qiime2.org/2018.6/tutorials/atacama-soils/

Let us know if you have any questions!

Colin