R package to test for locus and lineage associations in bacterial GWAS
To install this package in R: install.packages("[some_dir]/bugwas_1.0.tar.gz", repos = NULL, type="source") or install.packages("https://raw.githubusercontent.com/sgearle/bugwas/master/build/bugwas_1.0.tar.gz", repos=NULL, type="source")
The bugwas_1.0.tar.gz file can be found in the build folder in this repository.
The package requires the modified version of GEMMA version 0.93. The executable file is available in this github repository in the gemma folder.
If you would like to use our R package please cite the paper on the following webpage: http://www.nature.com/articles/nmicrobiol201641
If you have any queries, please post them on https://groups.google.com/forum/#!forum/bacterialgwas-users
Creators: Sarah Earle, NDM, Oxford University Jessie Wu, NDM, Oxford University Daniel Wilson, NDM, Oxford University