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impute2 website  

IMPUTE version 2 (also known as IMPUTE2) is a genotype imputation and haplotype phasing program based on ideas from Howie et al. 2009.

Environment Modules

Run module spider impute2 to find out what environment modules are available for this application.

System Variables

  • HPC_IMPUTE2_DIR - installation directory
  • HPC_IMPUTE2_BIN - executable directory
  • HPC_IMPUTE2_DOC - documentation directory
  • HPC_IMPUTE2_EXE - example directory


If you publish research that uses impute2 you have to cite it as follows:

B. N. Howie, P. Donnelly, and J. Marchini (2009) A flexible and accurate genotype imputation method for the next generation of genome-wide association studies. PLoS Genetics 5(6): e1000529