data trimming - a) Denoising and truncating

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1

Hi,

I wanted to know how to edit the command below, if no trimming is needed? I already have trimmed samples
qiime dada2 denoise-paired
--i-demultiplexed-seqs demux-paired-end.qza
--p-trunc-len-f <270>
--p-trunc-len-r <220>
--o-representative-sequences rep-seqs-dada2.qza
--o-table table-dada2.qza
--o-denoising-stats stats-dada2.qza

Thank you,
Best,
RR

2

Take a look at the docs for dada2 denoise-paired

You can set the --p-trunc-len-f and --p-trunc-len-r settings to the length of your reads, so nothing is trimmed.

I also want to direct you to the list of all first-party plugins for Qiime2.
https://docs.qiime2.org/2022.2/plugins/available/

You can check the documentation there, which I think is the best way to start answering most of your questions.

3

Thank you for your help