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Question: HiSAT2 edit distance option
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Hi all,

I'm analyzing single-end RNA-seq data and was wondering if there is a way to set the edit distance while using HiSAT2. It is not mentioned in the manual, should I somehow arrange the --score-min function?

I was also wondering if there is an option like TopHat's --microexon-search to look for reads that map to microexons.

Cheers, Gökberk

ADD COMMENTlink 9 months ago gokberk • 30

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