This package was designed for genome-wide association studies in autopolyploids but also works for diploids. A vignette is available to illustrate the basic workflow using the potato dataset that comes with the package. More detailed information is available in the package reference manual.
If you use the package in a publication, please cite Rosyara et al. (2016).
The original development of the package was supported by the USDA NIFA SCRI (Award No. 2011-51181-30629) and Hatch (Accession No. 1002731) programs. Beginning Fall 2020, new features are being added as part of the SCRI Project “Tools for Genomics-Assisted Breeding in Polyploids” (Award No. 2020-51181-32156).
To install and load the package:
install.packages("devtools")
devtools::install_github("jendelman/GWASpoly", build_vignettes=FALSE)
library(GWASpoly)