I am trying to do Demultiplexing sequences for my samples which are about 300 samples with different barcodes size in my FASTQ files. I already validate my metadata file (please see attached picture) and I did qiime tools import --type MultiplexedSingleEndBarcodeInSequence but now with Demultiplexing sequences I d not have the, --m-barcodes-column barcode-sequence, in a separate file and all the barcodes are with FASTQ sequence file. Do I have to extract the barcodes (probably linker primer) or I can ignore this part “–m-barcodes-column barcode-sequence”. For sequencing, I used Ion Torent S5.
(qiime demux emp-single --i-seqs emp-single-end-sequences.qza --m-barcodes-file sample-metadata.tsv --m-barcodes-column barcode-sequence --o-per-sample-sequences demux.qza --o-error-correction-details demux-details.qza)