Replace barcode sequence with sample-Id

[thermokarst]

Hi @M.Amine.Hassan!

@M.Amine.Hassan

I think I have misstated the question.

The manifest renames the file.fastq.

Did you see my question above? I will copy it here in case:

@thermokarst

Are you sure your reads are demultiplexed? Just double-checking, because those filenames imply otherwise.

The manifest format is only for already demultiplexed data. It really sounds like your reads aren't demultiplexed, but if you could confirm one way or the other, that would be great. If they aren't demultiplexed, we should be able to import as MultiplexedPairedEndBarcodeInSequence, and follow along with the q2-cutadapt community tutorial to demultiplex these reads.

This is similar to what was suggested to you above:

@M.Amine.Hassan

At anystep described so far I used the map_file.txt to indicated which barcode sequence correspond to which sample (Mock/Condition) as indicated in the Moving Pictures

but I don't think your multiplexed reads are in EMP format, so we can't use the command suggested to you.

Keep us posted!