SEQanswers - View Single Post - Adding barcode indexes back into FASTQ headers?

Luckyboy7 · 12-20-2019, 07:56 AM

Hi,

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?

12-20-2019, 07:56 AM	#7
Luckyboy7 Junior Member Location: kansas Join Date: Dec 2019 Posts: 1	Hi, 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?