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Table 3 Computation times for phasing and imputation procedures

From: Strategies for imputation to whole genome sequence using a single or multi-breed reference population in cattle

Procedure Approximate CPU time (hour:min)
Phasing reference (N = 242)
BEAGLE 02:30
SHAPEIT2 (4 cores) 52:00
Imputing one individual (ref: N = 241, validation: N = 1)
BEAGLE with phased reference 00:50
BEAGLE with un-phased reference 02:50
IMPUTE2 with phased reference 00:05
IMPUTE2 with un-phased reference 41:40
  1. Computations were done on a Unix computer cluster with Intel XEON X5670/X5677 processors.