eagle2 + minimac4 script for phasing and imputation

Question

[Shicheng Guo]

I am wondering anyone can share a bash script/demo script to show how eagle2 + minimac4 for phasing and imputation?

Thanks

Answer 1

[abedkurdi10]

Dear Shicheng Guo,

you can use Beagle alone for genotypes phasing and imputation.

check their documentation here: http://faculty.washington.edu/browning/beagle/beagle_5.3_07Feb22.pdf