Use gene counts from STAR >=2.4.2

LosicLab / starchip

Detection of Circular RNA and Fusions from RNA-Seq

http://starchimp.readthedocs.io/en/latest/

MIT License

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Use gene counts from STAR >=2.4.2 #1

Open kippakers opened 8 years ago

kippakers commented 8 years ago

The latest version of STAR can quantify gene counts on the fly, this should be incorporated into the FP detection aspect of fusions.

kippakers commented 8 years ago

The issue is that currently STAR only gives reads counts and gene name. To compare genes we would need gene size. That's not currently available/easy to generate on the fly. I think STAR will include this soon, and it makes sense to just wait.