R Observatory: Metrics for GRAB version 0.2.5

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

GRAB

0.2.5Package record

Genome-Wide Robust Analysis for Biobank Data (GRAB)

0packages depend

4.4Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Woody MiaoCRAN page ↗

Provides a comprehensive suite of genome-wide association study (GWAS) methods specifically designed for biobank-scale data, including but not limited to, robust approaches for time-to-event traits (Li et al., 2025 doi:10.1038/s43588-025-00864-z) and ordinal categorical traits (Bi et al., 2021 doi:10.1016/j.ajhg.2021.03.019). The package also offers general frameworks for GWAS of any trait type (Bi et al., 2020 doi:10.1016/j.ajhg.2020.06.003), while accounting for sample relatedness (Xu et al., 2025 doi:10.1038/s41467-025-56669-1) or population structure (Ma et al., 2025 doi:10.1186/s13059-025-03827-9). By accurately approximating score statistic distributions using saddlepoint approximation (SPA), these methods can effectively control type I error rates for rare variants and in the presence of unbalanced phenotype distributions. Additionally, the package includes functions for simulating genotype and phenotype data to support research and method development.

Install

R (CRAN)Ubuntu (r2u)Fedora (COPR)

install.packages("GRAB", repos = "https://cloud.r-project.org/")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

Release

# enable cranapt (r2u) if it is not already set up, then install
grep -rqs r2u.stat.illinois.edu /etc/apt/sources.list /etc/apt/sources.list.d/ \
  || curl -fsSL https://raw.githubusercontent.com/eddelbuettel/r2u/master/inst/scripts/add_cranapt_noble.sh | sudo bash
sudo apt install -y r-cran-grab

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled. We list this channel from recorded r2u download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

bspm (used by r2u) also needs make: sudo apt install make

# enable the iucar/cran COPR if it is not already present, then install
ls /etc/yum.repos.d/*iucar*cran*.repo >/dev/null 2>&1 \
  || sudo dnf copr enable -y iucar/cran
sudo dnf install -y R-CRAN-GRAB

RPMs from the iucar/cran COPR, rebuilt from CRAN.

For install.packages() integration in R, also: sudo dnf install R-CoprManager

Health

CRAN checks

13OK

CRAN check page ↗

Slowest check: 7.1 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK13 OK2026-06-09
ERROR12 OK, 1 ERROR2026-06-08
OK13 OK2026-05-02

Show 3 earlier changesHide 3 earlier changes

NOTE12 OK, 2 NOTE2026-04-22
ERROR11 OK, 2 NOTE, 1 ERROR2026-04-18
NOTE12 OK, 2 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.2.5

READMEYes · 135 wordsVignettesNoNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 28 (5 internal)
Examples that run: 93%13 run in a plain check · 1 hold no code
Exported functions with examples: 50%
Documented parameters: 88%
Return-value docs: 100%
Help pages citing references: 25%

How these are measured

Downloads

4.4K

CRAN downloads in the past year

Rank #8,240 · ~12/day · ~366/mo

Releases R versions

Daily download trend is not available in this view yet.

39330 days

1.1K90 days

4.4K1 year

Compare downloads with other packages →

Also on405 r2u2.9K conda_forge

How downloads are counted

Dependencies

Declared dependencies

18 external dependencies (excludes base and recommended)

Installing GRAB adds 41 packages (27 with compiled code, 51 MB of source tarballs). Heaviest: BH 14 MB, data.table 5.7 MB, igraph 4.8 MB.

Depends (1)

R >= 3.5.0

Imports (12)

dplyr data.table mvtnormMatrixRSQLite lme4 ordinalsurvivalRcpp RcppParallel igraph rlang

LinkingTo (4)

Rcpp RcppArmadillo RcppParallel BH

Suggests (4)

SKAT dbplyr tidyr R.utils

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

Datasets

People & History

People (6)

Woody Miao

Maintainer since 0.2.1 (2025)

Author

Author

Author

Author

Author

Releases (5)

Pick two releases to compare their code metrics.

0.2.5Latest
record
2026-07-03 · current release · diff ↗
R
R 4.6.0 released · 2026-04-24
0.2.4
record
2025-12-05 · diff ↗ ·
removed 8 exports
checkIfSampleIDsExist, getDenseGRM, getSampleIDsFromBGEN, getVersionFromBGEN, handleFormula, makeGroup, setDenseGRM, TestforBatchEffect

added 1 export
getPairwiseIBD
0.2.3
record
2025-08-20 · diff ↗
0.2.2
record
2025-07-29 · diff ↗
0.2.1
record
2025-07-25
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2025-07-25
Total releases: 5 / 1 yrs
License: GPL (>= 2) OSI
Minimum R: ≥ 3.5.0
Download size: 1.7 MB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("GRAB")

Format

Miao, W., Bi, W., Dey, R., Lee, S., Zhao, Z., & Zhou, W. (2026). GRAB: Genome-Wide Robust Analysis for Biobank Data (GRAB) (Version 0.2.5) [Computer software]. https://doi.org/10.32614/CRAN.package.GRAB

This package has no citation file, so citation() returns this entry built from DESCRIPTION.

Cite the R Observatory

For a number measured here: a download total, a coverage figure, an archival date.

Format

APA

Balamuta, J. J. (2026). R Observatory: Metrics for GRAB version 0.2.5 [Data set]. HJJB, LLC. Data release v2026-10-26. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-26, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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