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stjude / CICERO

CICERO: a versatile method for detecting complex and diverse driver fusions using cancer RNA sequencing data.
https://stjude.github.io/CICERO
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frameness? #57

Closed ahdee closed 3 years ago

ahdee commented 3 years ago

Hi is there a way to have Cicero output the frame predictions? Such as, in.frame, out.of.frame or undetermine?

edit: I notice 2 colums, frame and sv_frame but can't make out how to utilized these to determine the frame.

thanks!

adthrasher commented 3 years ago

@mnedmonson - Can you describe these two columns from the frame check?

I believe there is a numeric code [0,3] with blank also a possibility. 0 - event is not in frame 1 - event is in-frame 2 - geneB portion contains canonical coding start site 3 - possible 5' UTR fusion in geneB