GWAS Manhattan plots and QQ plots using ggplot2 in R

January 20, 2010
By

(This article was first published on Getting Genetics Done, and kindly contributed to R-bloggers)

Will posted earlier this week about how to produce manhattan plots of GWAS results using Stata, so I thought I’d share how I do this in R using ggplot2.

First, if you’ve never used ggplot2, you’ll need to add it to your R installation by typing:

install.packages(“ggplot2”)

Once you’ve done that, copy and paste this command to download the functions I wrote necessary to produce these plots.  If

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