Duplication rate in FastQC report
Hi all! Where I can found overall duplicate level in the FastQC report? I understood from the documentation that it is shown in the title of plot, but manual also says that a warning will be issued "if non-unique sequence make up more than 20% of the total" and this does not happen in my samples. In the example below 100-76.99=23.01, so why is there no warning? What am I getting wrong?
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That is probably per bin that you see on X-axis. Your data does not fail that limit for any one bin.
In case you have not seen this blog from FastQC authors: https://sequencing.qcfail.com/articles/libraries-can-contain-technical-duplication/
That makes sense, thank you!
It's not exactly like that... I found an example where 21.4% of reads are at duplication level 2 and there is no warning.
Not sure what kind of data this is but it should be fine to proceed with next step of the analysis. You will need to look at the code to see what triggers that warning.