Dear team,
can we calculate FST based on subpopulation using Hail?
https://www.biostars.org/p/361733/
Regards,
Perhaps applying this model could be helpful to you?
https://hail.is/docs/0.2/methods/genetics.html#hail.methods.balding_nichols_model
You are also welcome to apply Fst computations based on calculating either based on population weighted average frequency or average sample size incorporating variance.
Thanks Kumar !!
I think I didn’t understand properly.
I want to calculated FST for each subgroup wihin population something like vcftools does
Regards,
Najeeb
Dear Kumar,
Could you please help me in writing code chunk for performing this analysis ?
Regards,
Najeeb
Dear team,
Just a gentle reminder.
Regards,
Najeeb
Kumar, balding nichols is not going to help, that is a method to generate data. It doesn’t compute anything.