IMPUTE5

Description

impute5 website

A genotype imputation method that can scale to reference panels with millions of samples.This method continues to refine the observation made in the IMPUTE2 method, that accuracy is optim-ized via use of a custom subset of haplotypes when imputing each individual. It achieves fast, accurate, and memory-efficient imputation by selecting haplotypes using the Positional Burrows Wheeler Trans-form (PBWT). By using the PBWT data structure at genotyped markers, IMPUTE 5 identifies locally best matching haplotypes and long identical by state segments. The method then uses the selected haplo-types as conditioning states within the IMPUTE model.

Environment Modules

Run module spider impute5 to find out what environment modules are available for this application.

Environment Variables

• HPC_IMPUTE5_DIR - installation directory
• HPC_IMPUTE5_BIN - executable directory

Categories

biology, math