Package: GBJ 0.5.4

GBJ: Generalized Berk-Jones Test for Set-Based Inference in Genetic Association Studies

Offers the Generalized Berk-Jones (GBJ) test for set-based inference in genetic association studies. The GBJ is designed as an alternative to tests such as Berk-Jones (BJ), Higher Criticism (HC), Generalized Higher Criticism (GHC), Minimum p-value (minP), and Sequence Kernel Association Test (SKAT). All of these other methods (except for SKAT) are also implemented in this package, and we additionally provide an omnibus test (OMNI) which integrates information from each of the tests. The GBJ has been shown to outperform other tests in genetic association studies when signals are correlated and moderately sparse. Please see the vignette for a quickstart guide or Sun and Lin (2017) <arxiv:1710.02469> for more details.

Authors:Ryan Sun [aut, cre]

GBJ_0.5.4.tar.gz
GBJ_0.5.4.zip(r-4.7)GBJ_0.5.4.zip(r-4.6)GBJ_0.5.4.zip(r-4.5)
GBJ_0.5.4.tgz(r-4.6-x86_64)GBJ_0.5.4.tgz(r-4.6-arm64)GBJ_0.5.4.tgz(r-4.5-x86_64)GBJ_0.5.4.tgz(r-4.5-arm64)
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manual.pdf |manual.html✨
card.svg |card.png
GBJ/json (API)

# Install 'GBJ' in R:
install.packages('GBJ', repos = c('https://ryansunwork.r-universe.dev', 'https://cloud.r-project.org'))
Uses libs:
  • c++– GNU Standard C++ Library v3
Datasets:
  • FGFR2 - Genotypes at FGFR2 SNPs for subjects from 'GBR' population in the 1000 Genomes Project.
  • gbr_pcs - Simulated Principal Components for 'GBR' population in the 1000 Genomes Project.

On CRAN:

Conda:

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

cpp

4.69 score 2 stars 1 packages 33 scripts 236 downloads 5 mentions 19 exports 9 dependencies

Last updated from:bc40c99b67. Checks:12 OK, 1 FAIL. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-arm64OK158
linux-devel-x86_64OK161
source / vignettesOK207
linux-release-arm64OK153
linux-release-x86_64OK148
macos-release-arm64OK175
macos-release-x86_64OK340
macos-oldrel-arm64OK225
macos-oldrel-x86_64OK325
windows-develOK175
windows-releaseOK133
windows-oldrelOK142
wasm-releaseFAIL119

Exports:BJcalc_score_statscalc_var_nonzero_muebb_loglikestimate_ss_corGBJGBJ_objectiveGBJ_pvalueGHCGHC_objectiveHCherm_poly_diff_tminPOMNI_individualOMNI_ssparse_inputqnorm_muscore_stats_onlysurv

Dependencies:BHlatticeMatrixmvtnormRcppRcppEigenRSpectraSKATSPAtest

Generalized Berk-Jones (GBJ) Tutorial

Ryan Sun

Rendered fromGBJ_tutorial.Rmdusingknitr::rmarkdownon May 10 2026.

Last update: 2024-02-01
Started: 2017-08-30