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7 days ago
Chris ▴ 100
Hi all, I check a pair-end read sample and got this per tile sequence quality. Should I accept this sample? Thank you so much :) .
I read this but not sure if accept the warning and failure in this case. https://www.bioinformatics.babraham.ac.uk/projects/fastqc/Help/3%20Analysis%20Modules/12%20Per%20Tile%20Sequence%20Quality.html
Thanks Max for your help. Would you explain a little bit about the number on the y-axis? So one or two red tiles are still fine.
Number on Y axis are tile names that indicate the surface of the flowcell (top/bottom), swath, actual tile number. These vary with type of flowcell (e.g. for NovaSeq 6000 see page 73 in this document).