sortMeRNA before or after adapters trimming ?
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3.5 years ago
debitboro ▴ 200

Hi Biostars community,

Shall I use sortMeRNA before or after poly(A) tails removal and/or adapters trimming ?

Thanks

RNA-Seq rRNA sortMeRNA • 1.1k views
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3.3 years ago
caggtaagtat ★ 1.5k

If you are using it for rRNA removal, I would use it after trimming, since I basically maps the reads to the rRNA database and with trimming beforehand, the process should be improved.

However be aware, that sometimes it can happen, that a random blank line gets integraded into your data

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