I was able to successfully import a demultiplexed file from Qiime 1.9.1 as a Q2 artifact. However, when I then try to run deblur on it, it throws the following error:
Plugin error from deblur:
Argument to parameter ‘demultiplexed_seqs’ is not a subtype of SampleData[JoinedSequencesWithQuality | PairedEndSequences
WithQuality | SequencesWithQuality].
Does the Q2 deblur plugin only work on fastqs and not fastas?
Hi @sejsong,
Unfortunately the QIIME 2 plugin for deblur only works with fastqs at the moment, although this is our fault, there’s no reason it couldn’t work with fasta. We’ve got an open issue to correct that. You could always try using deblur directly.
At the moment, the best you’ll be able to do with QIIME 2 (without the fastq files) is to perform an QIIME 1-like OTU picking.
Sorry I don’t have a better solution 
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