How to import multiplexed data?

[thermokarst]

Hi @chiara!

@chiara

My data are multiplexed and joined with the barcode and they are gathered just in one file.

Hence, I do not know how to make my manifest fastq file as the absolute file-path for each sample and every direction would be exactly the same.

Since your data is still multiplexed, the manifest format is not applicable to you (those are only for demultiplexed reads).

Sounds like you have a perfect use case for importing your multiplexed reads and demultiplexing using the q2-cutadapt plugin! Check out this community tutorial for some more information:

Demultiplexing and Trimming Adapters from Reads with q2-cutadapt

Take some time to look at that document, and if you get stuck, come find us here for help!

Good luck!