Too many predicted sRNA are longer than 300nt

MikeAxtell / ShortStack

ShortStack: Comprehensive annotation and quantification of small RNA genes

MIT License

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Too many predicted sRNA are longer than 300nt #126

Closed Yuzhang0102 closed 1 year ago

Yuzhang0102 commented 1 year ago

Hi, Mike, I used ShortStack4 to annotate miRNA in animal, then I got 2541 sRNA, but only 188 passed all criteria defined as miRNA, others are more than 300nt. I want to know why so many too long hairpin. Can i adjust the predicted hairpin length by some parameters? And how can i know the unreliable sRNA not satisfied which criteria from the output?

Thanks, Yu

MikeAxtell commented 1 year ago

There is no option to adjust the maximum length of allowed hairpins for possible microRNA precursors.