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Does 'isoseq classify' filter multimappers? #738

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RisaWatanabe opened this issue Jan 13, 2025 · 0 comments
Open

Does 'isoseq classify' filter multimappers? #738

RisaWatanabe opened this issue Jan 13, 2025 · 0 comments

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@RisaWatanabe
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Hi, this is a general question regarding 'isoseq classify'.
Is there any filtering for multimappers in 'isoseq classify' ?

For example, the L1 transcripts could be MAPQ0 (multi-map) with 'primary alignment', fulfilling the minimum coverage and the minimum identity.
I assume that these L1 transcripts will be retained in 'isoseq classify' according to the following QA, but I was unsure.
#664

Thanks!

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