Hello community I need your help,
I’m starting to work with qiime 2 and I have two .fastq files coming from MiSeq parsing end, no barcode file and n barcode into .fastq file. What are the steps to be able to transform it to qza and follow the analysis.
Thank you very much for your help.
Hi @nganngo281097!
Are these barcodes part of the sequences? If so, see this tutorial for advice on importing and demultiplexing: Demultiplexing and Trimming Adapters from Reads with q2-cutadapt
If they are in the fastq header line or some other place like that, you will need to convert these to a different format prior to importing to QIIME 2. This qiime1 script might be a solution. Ideally, you would extract the barcodes and place them in a new fastq file, then import your data as EMP format in QIIME 2.
I hope that helps!
1 Like
Thank you for your help. I have only .fastq R1 file forward and fastq R2 file in reverse direction with the same sequence as above. And when I create the metadata file, there is no barcode in it. How can I analyze my data with qiime 2?
So you have only one sample? If that is the case, you can import using in the paired-end manifest format and proceed as if your data are already demultiplexed.
1 Like
This topic was automatically closed 31 days after the last reply. New replies are no longer allowed.