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quality control rRNA mapping

Hi, I'm trying to learn how to align my sequencing data to rRNA region so that, I will know the total % of reads maps to rRNA regions. I used STAR aligner to align my raw data (hg19). Can anyone please help me since I'm very new to bioinformatics.

Thanks in advance

Feroze

rna-seq
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updated by caggtaagtat caggtaagtat • written by ferozef • ferozef

using bedcov en depth from samtools to check the depth and coverage.

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written by gb gb

1 answer

Hi,

I use the tool sortMeRNA for that. It includes rRNA databases and can be used to align your reads to the databases, in order to exclude them from downstream analysis, if thats what your asking for.

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written by caggtaagtat caggtaagtat

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