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alexdobin / STAR

RNA-seq aligner
MIT License
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the length of input reads for STAR #1401

Open linpei26 opened 2 years ago

linpei26 commented 2 years ago

Hi Alex and all!

I am going to handle some short sequence reads, which may be ~20bp or even shorter. Is it still appropriate for mapping such short reads using STAR by tuning some parameters?

Thanks a lot! Best,

Pei

alexdobin commented 2 years ago

Hi Pei,

STAR can be used to map ~20b reads, however, you will not get exhaustive mapping for alignments with mismatches for such short reads.

Cheers Alex