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BG2

Performs Bayesian GWAS analysis for non-Gaussian data using BG2

Bioconductor version: 3.23 · Package version: 1.12.0

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.

Installation

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

BiocManager::install("BG2")

Details

MaintainerJacob Williams <jwilliams@vt.edu>
AuthorJacob 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>)
LicenseGPL-3 + file LICENSE
Downloads rank305
Source branchRELEASE_3_23
biocViewsAssayDomain, Bayesian, GenomeWideAssociation, SNP, Software

Documentation

Download

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

Source packageBG2_1.12.0.tar.gz
Windows binary (x86_64)BG2_1.12.0.zip
macOS binary (arm64)BG2_1.12.0.tgz
macOS binary (x86_64)BG2_1.12.0.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)