torkamanilab / genotype_imputation_pipeline Goto Github PK
View Code? Open in Web Editor NEWFinal version of the pipeline for processing TOPMED and other dbGaP datasets, includes: automatic identification of reference genome build and selection of correct chain file, mapping to GRCh37 reference build, initial quality control, ancestry analysis, post-ancestry quality control, phasing, imputation, post-imputation quality control.