Hello everyone,
I wanted to reach out and ask which tools are best for gene fusion priortization?
I want to know given a fusion variant from NGS can i use priortization tool to classify them as oncogenic or passenger?
I have come across, Oncofuse, Peagus and DeePrior .
My ground truth data (n = 532) did not perform very well across these tools.
Do you have any suggestions?
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written
by
anuthyagatur •
1 answer
I particularly like Arriba, although I've also used STAR-Fusion, Jaffa and FusionCatcher.
STAR-Fusion is very conservative (reports few calls). With Arriba you often find more false positives, but there are times when Arriba caught a fusion and STAR-Fusion didn't. They were both very successful in the DREAM fusion calling challenge.
Both JAFFA and FusionCatcher were a bit slow, and JAFFA often returns an immense list of fusions which you have to sift through.
Another nice thing about Arriba and STAR-Fusion is that you can basically align your data once, and then call both of them on the same aligned data.
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