Demultiplex with i7 index on dual index FASTQ

[agos316]

I am trying to demultiplex the FASTQ data with just the i7 index. The library is dual index and the BCL data is no longer available. Is this something I can accomplish using this application ?

Example

Index on read CCGCTAGCGG+TGCATGGCCA

Want to demux only by

CCGCTAGCGG on the barcodes.csv sheet.

There are 1000's of unique i5 reads and I want them binned just to the limited i7 indexes.

[jfjlaros]

You could use the -s and -e command line options to specify where the barcodes start and end respectively. In this case, adding -e 10 should do the trick.

[agos316]

@jfjlaros Thank you for your help, that fixed it for me