PacBio whole 16S amplification - Can QIMME2 be used

[rr220 (R)]

Hi,

I have used PacBio sequencing to amplify whole 16S gene for my metagenomics project. I have obtained the FASQ files for this project. My question is that can I use QIIME2 as a pipeline to run this dataset? Or i need to use other pipeine.

Best,
RR

[colinbrislawn (Colin J Brislawn)]

Good morning,

Yes, q2-dada now supports denoise-ccs. Check out the docs here:
https://docs.qiime2.org/2022.2/plugins/available/dada2/denoise-ccs/

Let us know if you have any questions about using this pipeline.

[rr220 (R)]

Thank you collin, I will try this.