llenzi
July 5, 2021, 8:34am
2
Hi @Azospirillum871 ,
I think your best bet is to follow the following tutorial:
The following is a "pocket guide" to determining the appropriate methods for importing and demultiplexing FASTA/FASTQ sequences (primarily from marker-gene sequencing experiments). Many samples are often "multiplexed" (pooled and sequenced together) on a single sequencing run. So the first step to analyzing these data is to demultiplex the data. Often, demultiplexing is performed automatically by sequencing centers/services and users. How can you tell if you have demultiplexed data? If you have …
From what you describe, you should have dual-barcode index, so you can import the fastq files you have and then demultiplex them using cutadapt, the command are summarised here:
q2-cutadapt plugin available in QIIME 2 2018.2 . Please stay tuned here for additional updates as this tutorial is expanded upon in the coming weeks.
Multiplexed reads with the barcodes in the sequence reads can be demultiplexed in QIIME 2 using the q2-cutadapt plugin,…
(but is referring to an old version of QIIME2 so it may need some tweaking ...)
Hope it helps
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