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Aishah 08-08-2019 01:00 AM

RNA-seq data QC
Regarding trimming of raw RNA-seq datasets, do we need to trim off primer sequences despite FASTQC not indicating these as overrepresented?

GenoMax 08-08-2019 03:17 AM

I assume you are referring to adapter sequences. Strictly speaking you don't need to since most modern aligners will soft clip them.

That said, it can be a good practice to scan and trim your data so you can be sure that there is no extraneous sequence present.

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