Question: STAR_how many mismatches to allow if the read length is 100 bp in RNA-seq data
gravatar for tg369
3.9 years ago by
United Kingdom
tg36910 wrote:


I have 100bp reads (single end) and want to align with the mouse genome using STAR.

How do I decide how many miss-matches I should allow? or Should I run STAR in default (where upto 10 miss-matches are allowed in default mode).

I will highly appreciate your advice. Many thanks in advance.

Kind regards,

Tanay Ghosh





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ADD COMMENTlink modified 3.9 years ago • written 3.9 years ago by tg36910
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