Hello maybe I'm missing something obvious, but how to I obtain representative-sequences and table from pre-joined data? My first qiime command is like this (preprocessed means prejoined by non-qiime tools): qiime tools import --type 'SampleData[JoinedSequencesWithQuality]' --input-path 16s-prepro…

Hi @michal.lichvar , If you want to use one of the denoising methods (Dada2 or Deblur) you'll either have to have import non-joined reads (for Dada2) or trim them to the same length (for Deblur). Outside of these, the only other method available for you in Qiime2 would be to use vsearch to dereplica…

[image] michal.lichvar: qiime deblur denoise-16S –i-demultiplexed-seqs 16s-preprocessed/16s-preprocessed.qza –p-trim-length -1 –o-representative-sequences 16s-preprocessed/16s-preprocessed-rep-seqs.qza –o-table 16s-preprocessed/16s-preprocessed-table.qza –p-sample-stats –o-stats 16s-prepro…

Dear @michal.lichvar , The Deblur algorithm requires all sequences are the same length -- a may be needed to process your data. Best, Daniel

Hi Mehrbod thank you, vsearch looks like tool I was asking for :wink: M.Lichvar

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