ProbABEL – R package for GWAS data imputation

April 6, 2010
By

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

I've been using GenABEL for some time now for GWAS analysis using related individuals. It has an excellent set of functions for estimating a kinship matrix from a dense marker panel and then using this in a linear mixed effects model to allow for related individuals in the analysis of a quantitative trait. GenABEL also has many other nice features for analysis and visualization of GWAS data that

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

Top 7 articles of the week

  1. Quandl Package - 5,000,000 free datasets at the tip of your fingers!
  2. Google Analytics + R = FUN!
  3. How R Grows
  4. Writing from R to Excel with xlsx
  5. Select operations on R data frames
  6. FasteR! HigheR! StongeR! - A Guide to Speeding Up R Code for Busy People
  7. AIC & BIC vs. Crossvalidation

Sponsors

Mango solutions
mango-solutions.com
Zero Inflated Models and Generalized Linear Mixed Models with R
Quantide: statistical consulting and training
RStudio homepage
RStudio: a free and open source IDE for R
REvolution analytics
HMS Analytical Software GmbH
http://www.eoda.de
Zero Inflated Models and Generalized Linear Mixed Models with R Zero Inflated Models and Generalized Linear Mixed Models with R. Zuur, Saveliev, Ieno (2012).