Dual indexing options?

Hey! I konw this question is too old but I’d like to know if there is an option avaialable these days for this "dual-indexing " in the demultiplexing

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Qiime 2 does not support dual-index reads, according to the documentation. :cry:

But it does suggest another option!

So for the time being, this type of demultiplexing needs to be done outside of QIIME 2 using other tools, for example bcl2fastq.

Let me know if that works for you.

Colin
P.S. Github issue cross ref for #55 q2-demux

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In order to continue with the topic in the forum… Colin… you say… it is allowed to do the dual demultiplexing in QIIME 1 and then continue with QIIME 2 ???

Thanks!

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Yes, yes you could!

After demultiplexing and quality filtering with Qiime 1, you will have a seqs.fna file with qiime labels. You can them import that seqs.fna file into a Qiime 2 seqs.qza artifact.
https://docs.qiime2.org/2019.1/tutorials/importing/#sequences-without-quality-information-i-e-fasta

Let me know if this method works for you!

Colin

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