search

parklab / MosaicForecast

A mosaic detecting software based on phasing and random forest
MIT License
62 stars 21 forks source link

MF on exomes #23

Closed gevro closed 3 years ago

gevro commented 3 years ago

Hi, Is it possible to use MF on exomes? I'm guessing it would require a new model?

douym commented 3 years ago

Hi, Is it possible to use MF on exomes? I'm guessing it would require a new model?

Hi @gevro ,

I have tried the model on some exome data before, and the results were resonable. It runs very quickly on exome data, and I think you could give it a try. There could be more false positive sites compared with WGS data, given the allelic imbalance generated by the capture procedure. Moreover, you may need to check the G>T vs. C>A mutations, given that oxidative damage (8-oxoG) is pretty frequent during the exome capture procedure.

Thanks,

Yanmei

gevro commented 3 years ago

Thank you!

douym commented 3 years ago

Thank you!

my pleasure!