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IMPUTE (genotype imputation)
Table of Contents
Introduction
IMPUTE version 2 (IMPUTE2) is a program for inferring haplotypes (phasing) and estimating genotypes (imputing).
This is a serial program and so one should request only a single compute node for IMPUTE2 jobs. The name of the IMPUTE2 binary executable is impute2.
See the IMPUTE2 Software Versions page (or choose the corresponding tab above) for a list of systems on which the software has been installed.
Running IMPUTE2 on Breezy
See the general notes in the introduction above. A precompiled static version of IMPUTE 2.3.2 has been installed as
/global/software/impute/impute232/bin/impute2
Example files distributed with the software are available in
/global/software/impute/impute232/Example
Running IMPUTE2 on Hermes/Nestor
See the general notes in the introduction above. Before running SHAPEIT on Hermes, initialize your environment with
module load impute
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2015-04-23 - Page created.