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3.6 years ago
diglet27
•
0
Hi there! After doing fastqc on my data (10x) I detected some Illumina adapters in R2. I was wondering if that probably means that I have also barcode contamination on the 3 'end of R2?
Thanks
Probably no need to do QC with FastQC on 10x data. You should proceed with cellranger (or other) analysis.
Cellranger uses STAR, which in my experience is robust to that kind of problem. It will soft clip that sequence at the end, no problem.