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. 2014 Sep 1;4(9):1603–1610. doi: 10.1534/g3.114.012963

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Copyright © 2014 Mackay et al.

This is an open-access article distributed under the terms of the Creative Commons Attribution Unported License (http://creativecommons.org/licenses/by/3.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

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Analysis of LD in the MAGIC population. (A) Heatmap of LD decay of ordered SNPs over 21 chromosomes, ordered 1A, 1B…7D, D′ above the diagonal and r² below. (B) Heatmap of SNPs scaled by the genetic map. Each chromosome has been extended to a nominal 250 cM. Examples of individual chromosomes, LD heatmaps, and plots of LD decay are illustrated for (C) chromosome 2B and (D) chromosome 2D. (C and D) Upper left: ordered SNPs; lower left: scaled by genetic map; upper right: D′ plotted against genetic distance; lower right: r² plotted against genetic distance.