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snugel / cas-offinder

An ultrafast and versatile algorithm that searches for potential off-target sites of CRISPR/Cas-derived RNA-guided endonucleases.
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statistics? #53

Open xiaonalu opened 1 year ago

xiaonalu commented 1 year ago

Could the outcome be integrated with statistics, to guide further wet experiments to detect high risk off target event? Thanks

pjb7687 commented 1 year ago

Sounds like a duplicate to #42

LiangShaw commented 10 months ago

We knew the cas-offinder output. But what can we next do to generate "off-target score" for evaluating off-target efficiency. In other words, we need a value to judge a gRNA good or bad relatively.

pjb7687 commented 10 months ago

I see, I have a plan to upgrade the web interface soon, but it had to be delayed due to the shortage of R&D funding in Korea. We hope to finish this within this year. The progress will be trackable at: https://github.com/pnucolab

LiangShaw commented 10 months ago

I see, I have a plan to upgrade the web interface soon, but it had to be delayed due to the shortage of R&D funding in Korea. We hope to finish this within this year. The progress will be trackable at: https://github.com/pnucolab

Thanks for your soon reply! And recently i'm designing gRNAs in batch based on NGG rules. Then i wanna evaluate the off-target efficiency of these gRNAs by cas-offinder for further filter. I started to know cas-offinder from a pubished paper in Nature Genetics. They said they identified off-target scores by Cas-OFFinder. I have no idea about the raw Cas-OFFinder output. Do you have any suggestion for me?

LiangShaw commented 10 months ago

I think i see how to use the raw Cas-OFFinder output. Just count the match records for each gRNA. Only one record is the best design!