Package: GWAS.BAYES 1.15.0

Jacob Williams

GWAS.BAYES: Bayesian analysis of Gaussian GWAS data

This package is built to perform GWAS analysis using Bayesian techniques. Currently, GWAS.BAYES has functionality for the implementation of BICOSS (Williams, J., Ferreira, M. A., and Ji, T. (2022). BICOSS: Bayesian iterative conditional stochastic search for GWAS. BMC Bioinformatics), BGWAS (Williams, J., Xu, S., Ferreira, M. A.. (2023) "BGWAS: Bayesian variable selection in linear mixed models with nonlocal priors for genome-wide association studies." BMC Bioinformatics), and IEB. All methods currently are for the analysis of Gaussian phenotypes The research related to this package was supported in part by National Science Foundation awards DMS 1853549, DMS 1853556, and DMS 2054173.

Authors:Jacob Williams [aut, cre], Marco Ferreira [aut], Tieming Ji [aut]

GWAS.BAYES_1.15.0.tar.gz
GWAS.BAYES_1.15.0.zip(r-4.5)GWAS.BAYES_1.15.0.zip(r-4.4)GWAS.BAYES_1.15.0.zip(r-4.3)
GWAS.BAYES_1.15.0.tgz(r-4.4-any)GWAS.BAYES_1.15.0.tgz(r-4.3-any)
GWAS.BAYES_1.15.0.tar.gz(r-4.5-noble)GWAS.BAYES_1.15.0.tar.gz(r-4.4-noble)
GWAS.BAYES_1.15.0.tgz(r-4.4-emscripten)GWAS.BAYES_1.15.0.tgz(r-4.3-emscripten)
GWAS.BAYES.pdf |GWAS.BAYES.html
GWAS.BAYES/json (API)

# Install 'GWAS.BAYES' in R:
install.packages('GWAS.BAYES', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Datasets:
  • SNPs - A. Thaliana Genotype matrix
  • Y - A. Thaliana Simulated Phenotype matrix
  • kinship - A. Thaliana Kinship matrix

On BioConductor:GWAS.BAYES-1.15.0(bioc 3.20)GWAS.BAYES-1.14.0(bioc 3.19)

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

bioconductor-package

3 exports 0.91 score 84 dependencies

Last updated 2 months agofrom:963cbb5de4

Exports:BGWASBICOSSIEB

Dependencies:cachemcaretclasscliclockcodetoolscolorspacecpp11crayondata.tablediagramdigestdplyre1071ellipsisfansifarverfastmapforeachfuturefuture.applyGAgenericsggplot2globalsgluegowergtablehardhatipredisobanditeratorsKernSmoothlabelinglatticelavalifecyclelimmalistenvlubridatemagrittrMASSMatrixmemoisemgcvModelMetricsmunsellnlmennetnumDerivparallellypillarpkgconfigplyrpROCprodlimprogressrproxypurrrR6RColorBrewerRcppRcppArmadillorecipesreshape2rlangrpartscalesshapeSQUAREMstatmodstringistringrsurvivaltibbletidyrtidyselecttimechangetimeDatetzdbutf8vctrsviridisLitewithr

BICOSS in the GWAS.BAYES Package

Rendered fromVignette_BICOSS.Rmdusingknitr::rmarkdownon Jun 30 2024.

Last update: 2023-11-02
Started: 2023-11-02

IEB in the GWAS.BAYES Package

Rendered fromVignette_IEB.Rmdusingknitr::rmarkdownon Jun 30 2024.

Last update: 2023-11-02
Started: 2023-11-02