/snakemake-genotype-imputation

General pipeline for imputation using TOPMed Imputation Server or Michigan Imputation Server API. Assumes input genotypes are on hg19.

Primary LanguagePerl

Set up config file

The program expects a config.yaml file in the same format as config_example.yaml, which provides at token for each imputation server. To get this token, create a user account on each server.

After logging into your account, navigate to your profile and scroll down to the "API Access" section to generate the token.