BG2

Performs Bayesian GWAS analysis for non-Gaussian data using BG2

Bioconductor version: 3.24 · Package version: 1.13.0

Other Bioconductor versions

devel is the development version; release is the current stable one.

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.

DOI: 10.18129/B9.bioc.BG2

Installation

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("BG2")

Details

Maintainer	Jacob Williams <jwilliams@vt.edu>
Author	Jacob Williams [aut, cre] (ORCID: <https://orcid.org/0000-0002-6425-1365>), Shuangshuang Xu [aut], Marco Ferreira [aut] (ORCID: <https://orcid.org/0000-0002-4705-5661>)
License	GPL-3 + file LICENSE
Source branch	devel
Build report	Bioconductor build system, r-universe
biocViews	AssayDomain, Bayesian, GenomeWideAssociation, SNP, Software
Package Short Url	https://bioconductor.org/packages/BG2/

Citation

From within R, enter citation("BG2"):

Jacob Williams, Shuangshuang Xu, Marco Ferreira. BG2: Performs Bayesian GWAS analysis for non-Gaussian data using BG2. doi:10.18129/B9.bioc.BG2, R package version 1.13.0, https://bioconductor.org/packages/BG2.

Generated from the package metadata; it may differ from the package's own citation.

Documentation

Download

Follow the installation instructions to use this package in your R session.

Source package	BG2_1.13.0.tar.gz
Windows binary (x86_64)	BG2_1.13.0.zip
macOS binary (arm64)	BG2_1.13.0.tgz
macOS binary (x86_64)	BG2_1.13.0.tgz

Dependencies

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)

Suggests: BiocStyle, knitr, rmarkdown, formatR, rrBLUP, testthat (>= 3.0.0)