What kind of approaches are used in order to estimate average size of LD block using LD-decay plot?
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4.7 years ago
rimgubaev ▴ 330

I wonder if someone could give examples of how one could estimate the average size of LD block by looking at LD decay plot like one attached. I know that it is possible to set a certain threshold for r2, but it is not clear which value should be used then. For example, I just pick r2 equal to 0.3 and get the size of a block approximately equal to 500kb by looking at LOESS curve, are my assumptions correct then? Or there are other approaches to pick the r2 by analysing plot to determine LD block size? enter image description here

SNP Linkage disequilibrium R2 LD block • 1.8k views

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