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2016-05-13 09:38:45 -0600 | asked a question | How can I estimate the linkage disequilibrium from my imputed data set? Hi everyone, I'm new to this software and to this forum, I would need to estimate the linkage disequilibrium using my data. I have around 3000 individuals with a list of SNP genotyped and imputed. I would like to create a LD plot from my population. I would like to do this on a small region of around 100kb. my file is in this format: Any suggestion? Thanks |