R Observatory: Metrics for MAGEE version 1.4.5

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

MAGEE

1.4.5Package record

Mixed Model Association Test for GEne-Environment Interaction

0packages depend

3.6Kdownloads / year

1.9%test coverage

13/13flavors OK

Overview

About

Maintained by Han ChenCRAN page ↗

Use a 'glmmkin' class object (GMMAT package) from the null model to perform generalized linear mixed model-based single-variant and variant set main effect tests, gene-environment interaction tests, and joint tests for association, as proposed in Wang et al. (2020) DOI:10.1002/gepi.22351.

Install

R (CRAN)Ubuntu (r2u)

install.packages("MAGEE", 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-magee

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

Health

CRAN checks

13OK

CRAN check page ↗

Slowest check: 7.3 min · r-oldrel-macos-x86_64

Status changes

OK13 OK2026-09-08
ERROR12 OK, 1 ERROR2026-09-07
OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK12 OK2026-04-25

Show 3 earlier changesHide 3 earlier changes

NOTE11 OK, 3 NOTE2026-04-22
ERROR10 OK, 3 NOTE, 1 ERROR2026-04-18
NOTE11 OK, 3 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.4.5

READMENoVignettesYes · 1 · staticNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 6includes a package overview page
Examples that run: 25%1 run in a plain check · 3 only when donttest examples are enabled (R CMD check --as-cran)
Exported functions with examples: 100%
Documented parameters: 95%
Return-value docs: 100%
Help pages citing references: 83%

Vignettes (1)

MAGEE PDF

How these are measured

Downloads

3.6K

CRAN downloads in the past year

Rank #12,134 · ~10/day · ~303/mo

Releases R versions

Daily download trend is not available in this view yet.

38830 days

90990 days

3.6K1 year

Compare downloads with other packages →

Also on386 r2u

How downloads are counted

Dependencies

Declared dependencies

11 external dependencies (excludes base and recommended)

Installing MAGEE adds 7 packages (5 with compiled code, 11 MB of source tarballs). Heaviest: data.table 5.7 MB, GMMAT 1.8 MB, Rcpp 1.8 MB.

Depends (1)

R >= 3.2.0

Imports (8)

RcppMatrixparallelMASSforeach GMMAT CompQuadForm data.table

LinkingTo (2)

Rcpp RcppArmadillo

Suggests (4)

doMC SeqArray SeqVarTools testthat

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 (8)

Han Chen

Author, Maintainer since 1.0.1 (2021)

Cong Pan

Author · added in 1.1.0

Duy Pham

Author

Xinyu Wang

Author

Eric Biggers

Contributor, Copyright holder · added in 1.3.0

Author and copyright holder of included libdeflate library

Tino Reichardt

Contributor, Copyright holder · added in 1.3.0

Author and copyright holder of threading code used in the included Zstandard (zstd) library

Kenneth Westerman

Contributor · added in 1.0.2

Meta Platforms, Inc. and affiliates

Copyright holder · added in 1.3.0

Copyright holder of included Zstandard (zstd) library

Previously maintained by Xinyu Wang (1.0.0).

Releases (15)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
1.4.5Latest
record
2026-02-12 · current release · diff ↗
1.4.4
record
2025-10-21 · diff ↗
unarchivedReturned to CRAN
2025-07-12
1.4.3
record
2025-07-12 · diff ↗
archivedRemoved from CRAN
2025-07-03
issues were not corrected in time
R
R 4.5.0 released · 2025-04-11
1.4.2
record
2024-07-26 · diff ↗
1.4.1
record
2024-04-28 · diff ↗
R
R 4.4.0 released · 2024-04-24
1.4.0
record
2024-04-23 · diff ↗
1.3.2
record
2023-11-17 · diff ↗
1.3.1
record
2023-10-12 · diff ↗
R
R 4.3.0 released · 2023-04-21
1.3.0
record
2023-04-18 · diff ↗
removedRemoved from CRAN
2023-04-05
policy violations Including misrepresentation of authorship Back on CRAN on 2023-04-18

Show 9 earlier eventsHide 9 earlier events

1.2.0
record
2022-06-03 · diff ↗ ·
added 2 exports
MAGEE.meta, glmm.gei.meta
R
R 4.2.0 released · 2022-04-22
1.1.1
record
2022-04-13 · diff ↗
1.1.0
record
2022-03-31 · diff ↗
1.0.2
record
2022-01-27 · diff ↗
1.0.1
record
2021-11-18 · diff ↗
R
R 4.1.0 released · 2021-05-18
1.0.0
record
2021-05-10
R
R 4.0.0 released · 2020-04-24

Package metadata

First published: 2021-05-10
Total releases: 15 / 5 yrs
License: GPL (>= 3) OSI
Copyright: See COPYRIGHTS for details.
Minimum R: ≥ 3.2.0
Bundled data: 518 KB / 2 files
Download size: 1.9 MB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("MAGEE")

Format

Chen, H., Meta Platforms, Inc. and affiliates, Biggers, E., Pan, C., Pham, D., Reichardt, T., Wang, X., & Westerman, K. (2026). MAGEE: Mixed Model Association Test for GEne-Environment Interaction (Version 1.4.5) [Computer software]. https://doi.org/10.32614/CRAN.package.MAGEE

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 MAGEE version 1.4.5 [Data set]. HJJB, LLC. Data release v2026-10-23. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-23, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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