How to perform fusion search with Hisat2?

Question

[abdul.suboor123]

I need fusion genes, but also need to use hisat, I don't know how to do fusion search with hisat.

[abdul.suboor123]

Thanks @Kevin Blighe , I visited the link you provided, but there is no any solution about the problem, they are also still trying to develop it. Yeah At least I came to know that they are still developing it , not yet developed. Thanks.

[Kevin Blighe]

You may want to take a look at other programs:

• https://www.nature.com/articles/srep21597
• https://omictools.com/gene-fusion-detection-category

[abdul.suboor123]

@Kevin Blighe Thank you, I will try on those packages mentioned in the nature article.

Answer 1

[Kevin Blighe]

I do not believe it is yet implemented in HISAT2: https://github.com/DaehwanKimLab/hisat2/issues/8

Other fusion detection programs: A: Gene Fusion Detection: Rna-Seq Data

Kevin