About Annotate LD Plot (LOD)

Linkage Disequilibrium (LD) is the non random association between alleles in the population The LD plot plugin generates a pairwise plot of marker-to-marker LD values,on the current view. The ticks denote the markers with respect to their physical location on the chromosome segment. The boxes represent the marker pair relationship and it is plotted between the two markers. The color of the box (or the intensity of the color) is based on the raw score for that marker pair. Three LD properties can be viewed as separate tracks more detailed explaination about the tracks and how to configure them are available here .

This plugin was written Lalitha Krishnan & Lincoln Stein.

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Generic genome browser version 1.68