With regard to computational efficiency among the imputation programs, Howie et al. previously found that IMPUTE2 runs considerably faster and requires far less computational memory than BEAGLE [17]. Our own imputation analyses found that IMPUTE2 and MaCH-Admix were best capable of being scaled to 1000 Genomes imputations, as expected given the recent developments in these newest programs to accommodate larger reference panels while minimizing the impact on computational burden.
