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gagneurlab / FRASER

FRASER - Find RAre Splicing Events in RNA-seq
MIT License
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how does FRASER compare to SpliSER? #90

Open MiqG opened 1 month ago

MiqG commented 1 month ago

Hi,

thanks for creating such a comprehensive framework for splicing analysis.

I have recently come across SpliSER (https://github.com/CraigIDent/SpliSER) a tool that, I understand, computes splice site strength estimation in a similar way to how you compute your theta values. Do you agree with that or are they conceptually different scores?

Thanks very much! Best,

Miquel

vyepez88 commented 2 weeks ago

Hi Miquel, we haven't heard of it. As you say, it does sound similar, but we couldn't find exactly how the values are quantified in the repository you sent. There's also no publication linked to it.

MiqG commented 2 weeks ago

Hi Vicente, thanks for your reply. Here's the doi of the publication: https://doi.org/10.1093/nargab/lqab041

I was curious about it because their calculation of SSE looks similar to FRASER's

Thanks!!

vyepez88 commented 2 weeks ago

Thanks for sharing. I checked the formula in Fig 1 and it seems the metric is a combination of FRASER's theta for the donor and the acceptor sites combined into one.