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GWAtoolbox is an R-package for fast quality control and data handling of multiple data files obtained from genome-wide association studies (GWAS). Thought to be employed as a preprocessing tool in the meta-analysis of GWA data, GWAtoolbox can process multiple GWA data files in a few minutes. Output consists in an extensive list of quality statistics and graphical output, to give a comprehensive overview of the data that are going to be meta-analyzed.


If you use GWAtoolbox, please cite:

​Christian Fuchsberger, Daniel Taliun, Peter P. Pramstaller, and Cristian Pattaro, CKDGen consortium.
GWAtoolbox: an R package for fast quality control and handling of GWAS meta-analysis data. Bioinformatics 2012; 28(3):444-445.

Supplementary material

Table S1. Comparison of popular meta-analysis tools

Figure S2. Meta-analysis workflow



Version 2.2.4-7 - Published 2013-07-30


R version 2.15.0 or higher


The current GWAtoolbox packages are available here:

​​​​​Sources and latest development releases are available on project's R-Forge​ repository.

Previous versions are available on CRAN archive.

GPL License

Copyright © 2010 by Christian Fuchsberger, Daniel Taliun and Cristian Pattaro. All rights reserved.

GWAtoolbox is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version. 

GWAtoolbox is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details. 

You should have received a copy of the GNU General Public License along with GWAtoolbox. If not, see http://www.gnu.org/licenses/.

Contact Us

For questions, comments, or any other help regarding the GWAtoolbox, please contact us through email daniel.taliu​n@eurac.edu.

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