GWAS Manhattan plots and QQ plots using ggplot2 in R

January 20, 2010

(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:


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

To leave a comment for the author, please follow the link and comment on their blog: Getting Genetics Done. offers daily e-mail updates about R news and tutorials on topics such as: Data science, Big Data, R jobs, visualization (ggplot2, Boxplots, maps, animation), programming (RStudio, Sweave, LaTeX, SQL, Eclipse, git, hadoop, Web Scraping) statistics (regression, PCA, time series, trading) and more...

If you got this far, why not subscribe for updates from the site? Choose your flavor: e-mail, twitter, RSS, or facebook...

Tags: , , , , ,

Comments are closed.


Never miss an update!
Subscribe to R-bloggers to receive
e-mails with the latest R posts.
(You will not see this message again.)

Click here to close (This popup will not appear again)