BG2

DOI: 10.18129/B9.bioc.BG2  

Performs Bayesian GWAS analysis for non-Gaussian data using BG2

Bioconductor version: Release (3.17)

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 vt.edu>

Installation

To install this package, start R (version "4.3") and enter:

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

BiocManager::install("BG2")

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

Documentation

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

browseVignettes("BG2")

 

HTML	R Script	BG2
PDF		Reference Manual
Text		LICENSE

Details

biocViews	AssayDomain, Bayesian, GenomeWideAssociation, SNP, Software
Version	1.0.0
In Bioconductor since	BioC 3.17 (R-4.3) (< 6 months)
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)
LinkingTo
Suggests	BiocStyle, knitr, rmarkdown, formatR, rrBLUP, testthat (>= 3.0.0)
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	BG2_1.0.0.tar.gz
Windows Binary	BG2_1.0.0.zip
macOS Binary (x86_64)	BG2_1.0.0.tgz
macOS Binary (arm64)	BG2_1.0.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/BG2
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/BG2
Bioc Package Browser	https://code.bioconductor.org/browse/BG2/
Package Short Url	https://bioconductor.org/packages/BG2/
Package Downloads Report	Download Stats
Old Source Packages for BioC 3.17	Source Archive