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Old 12-20-2019, 07:56 AM   #7
Junior Member
Location: kansas

Join Date: Dec 2019
Posts: 1


I am almost in the same boat. I have two fastQ file for each index (index i7 and i5) and two pair-end raw reads file (R1 and R2). Last time when I had two inline barcodes i7+i5 on the header, I used bbMap conveniently and demultiplexed them. But, I am not sure how can I add these two barcode indexes and bring them as inline header in the raw sequence files so that I can demultiplex my data as before. Is there anyway I can use bbmap to demultiplex my seq data whether my barcodes are in separate files?
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