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. 2019 Feb 18;10:52. doi: 10.3389/fgene.2019.00052

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Copyright © 2019 Korkuć, Arends and Brockmann.

This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

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Comparison of different phasing strategies. The target population consisting of 30 DSN animals was either unphased (red), phased with Beagle (blue) or phased with Eagle (green), while the “1000 bulls” reference panel was phased with Beagle (left panel) or Eagle (right panel). Imputation was performed using Beagle (top panel) or Minimac (bottom panel) from 50 k to sequence level and imputation accuracy was calculated as relative Manhattan distance. Imputation with Beagle showed the best accuracy when using an unphased target population. The highest accuracy for imputations with Minimac was observed when both the target population and reference panel were phased with Beagle.