Question: Mapping quality in Oxford Nanopore
gravatar for rah
9 weeks ago by
rah20 wrote:

Now i've seen in several post here at Biostars, that if we have mapping qualities of 0, this means the reads are multimapping.

The data im analyzing comes from Oxford Nanopore sequencing which in general have a higher sequencing error, when compared to other sequencing tools.

So my question would be, beside the multimapping would it be possible if the read have a high error rate, that the quality will be 0, which would likewise result in a low accuracy?

Thanks a lot for your time and help

ADD COMMENTlink modified 11 days ago by Biostar ♦♦ 20 • written 9 weeks ago by rah20

Even if you have many low-quality bases, it is extremely unlikely that a multi-kb long read will map to different locations equally well due to that.

ADD REPLYlink written 9 weeks ago by ATpoint23k
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