Entering edit mode
6.8 years ago
BusinessJim
▴
10
I am trying to get to grips with iAdmix and I can run it using the data they provide but unfortunately I haven't been able to generate my own population allele frequencies to use as inputs.
On the GitHub page they say"
population allele frequencies for common SNPs (generated using HapMap3 genotypes or other genotype datasets)
I would like to use the whole HapMap3 data set but I have no idea how to do that, could anyone point me in the right direction?
For allele frequency, one can use dbSNP. Copy/pasted from https://www.ncbi.nlm.nih.gov/variation/docs/human_variation_vcf/: