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Performs Bayesian GWAS analysis for non-Gaussian data using BG2

Bioconductor version: Release (3.19)

This package is built to perform GWAS analysis for non-Gaussian data using BG2. The BG2 method uses penalized quasi-likelihood along with nonlocal priors in a two step manner to identify SNPs in GWAS analysis. The research related to this package was supported in part by National Science Foundation awards DMS 1853549 and DMS 2054173.

Author: Jacob Williams [aut, cre] , Shuangshuang Xu [aut], Marco Ferreira [aut]

Maintainer: Jacob Williams <jwilliams at>

Citation (from within R, enter citation("BG2")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

BG2 HTML R Script
Reference Manual PDF


biocViews AssayDomain, Bayesian, GenomeWideAssociation, SNP, Software
Version 1.4.0
In Bioconductor since BioC 3.17 (R-4.3) (1 year)
License GPL-3 + file LICENSE
Depends R (>= 4.2.0)
Imports GA (>= 3.2), caret (>= 6.0-86), memoise (>= 1.1.0), Matrix (>= 1.2-18), MASS (>= 7.3-58.1), stats (>= 4.2.2)
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Suggests BiocStyle, knitr, rmarkdown, formatR, rrBLUP, testthat (>= 3.0.0)
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Follow Installation instructions to use this package in your R session.

Source Package BG2_1.4.0.tar.gz
Windows Binary
macOS Binary (x86_64) BG2_1.4.0.tgz
macOS Binary (arm64) BG2_1.4.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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