I want to import multiplexed paired end reads but I have no barcodes.fastq.gz

Hi everyone!
I want to import multiplexed paired end reads data. I know the sequences of barcodes I used for different samples. But I don`t have barcodes.fastq.gz file.

Firstly, I tried import data with manifest by PairedEndFastqManifestPhred33V2. It worked but got the qza file with the type of SampleData[PairedEndSequencesWithQuality]'.

So it did`t work if next I do the cutadapt (it requires MultiplexedPairedEndBarcodeInSequence type).

So I`m confused that what kind of method should I use to import data? If there is a way to get the barcodes.fastq.gz since I have the sequence of each barcode.

Please see this community tutorial:

You will need to make a few adjustments to the commands listed there to make it work with paired-end reads. If you get stuck please check in with us here - thanks!

Hi @thermokarst

Thanks for your reply!!

I`ll have a try.


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