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smithlabcode / ribotricer

A tool for accurately detecting actively translating ORFs from Ribo-seq data
http://doi.org/djv4
GNU General Public License v3.0
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Unstranded Library #149

Closed bshim181 closed 6 months ago

bshim181 commented 6 months ago

Hello,

I am aware that Ribotricer infers strandedness of the protocol and determines whether it is forward or reverse stranded. I was wondering what happens if the protocol is unstranded? How would Ribotricer handle in this case? Thank you!

saketkc commented 6 months ago

By default, the protocol is set to forward: https://github.com/smithlabcode/ribotricer/blob/34bcf7f7c4a19e42b5225641e5eec638376d1eb2/ribotricer/infer_protocol.py#L108

If you have come across unstranded Ribo-seq datasets, I will be curious to know.