Package: BG2 1.13.0

Jacob Williams

BG2: Performs Bayesian GWAS analysis for non-Gaussian data using BG2

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.

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

BG2_1.13.0.tar.gz
BG2_1.13.0.zip(r-4.7)BG2_1.13.0.zip(r-4.6)BG2_1.13.0.zip(r-4.5)
BG2_1.13.0.tgz(r-4.6-any)BG2_1.13.0.tgz(r-4.5-any)
BG2_1.13.0.tar.gz(r-4.7-any)BG2_1.13.0.tar.gz(r-4.6-any)
BG2_1.13.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
BG2/json (API)

# Install 'BG2' in R:
install.packages('BG2', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))
Datasets:
  • kinship - A. Thaliana Kinship matrix
  • SNPs - A. Thaliana Genotype matrix
  • Y_binary - A. Thaliana Simulated Phenotype matrix
  • Y_poisson - A. Thaliana Simulated Phenotype matrix

On BioConductor:BG2-1.13.0(bioc 3.24)BG2-1.12.0(bioc 3.23)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

bayesianassaydomainsnpgenomewideassociation

4.00 score 8 scripts 265 downloads 1 exports 79 dependencies

Last updated from:23448c8758. Checks:1 WARNING, 9 OK. Indexed: yes.

TargetResultTimeFilesSyslog
bioc-checksWARNING170
linux-devel-x86_64OK272
source / vignettesOK317
linux-release-x86_64OK289
macos-release-arm64OK355
macos-oldrel-arm64OK331
windows-develOK416
windows-releaseOK374
windows-oldrelOK366
wasm-releaseOK134

Exports:BG2

Dependencies:cachemcaretclasscliclockcodetoolscpp11crayondata.tablediagramdigestdplyre1071farverfastmapforeachfuturefuture.applyGAgenericsggplot2globalsgluegowergtablehardhatipredisobanditeratorsKernSmoothlabelinglatticelavalifecyclelistenvlubridatemagrittrMASSMatrixmemoiseModelMetricsnlmennetnumDerivparallellypillarpkgconfigplyrpROCprodlimprogressrproxypurrrR6RColorBrewerRcppRcppArmadillorecipesreshape2rlangrpartS7scalesshapesparsevctrsSQUAREMstringistringrsurvivaltibbletidyrtidyselecttimechangetimeDatetzdbutf8vctrsviridisLitewithr

BG2

Shuangshuang Xu, Jacob Williams, and Marco A.R. Ferreira

Rendered fromBG2.Rmdusingknitr::rmarkdownon May 29 2026.

Last update: 2023-01-08
Started: 2022-12-12