milorGWAS

0.7.1

Mixed Logistic Regression for Genome-Wide Analysis Studies (GWAS)

0packages depend

2.9Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Hervé PerdryFirst published 2020-03-254 releasesCRAN page ↗

Fast approximate methods for mixed logistic regression in genome-wide analysis studies (GWAS). Two computationnally efficient methods are proposed for obtaining effect size estimates (beta) in Mixed Logistic Regression in GWAS: the Approximate Maximum Likelihood Estimate (AMLE), and the Offset method. The wald test obtained with AMLE is identical to the score test. Data can be genotype matrices in plink format, or dosage (VCF files). The methods are described in details in Milet et al (2020) doi:10.1101/2020.01.17.910109.

Install

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

install.packages("milorGWAS", 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-milorgwas

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled.

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-milorGWAS

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

Slowest check: 4.8 min · r-oldrel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

Dependencies · direct

Check history

OK2026-04-25
12 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-04-22
12 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-04-18
11 OK · 2 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
NOTE2026-03-10
12 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesYes · dynamicpkgdown siteNoNEWSYes · 67% structuredCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 98%
Return-value docs: 100%
References docs: 0%

Downloads

2.9K

CRAN downloads in the past year

Rank #17,338 · ~8/day · ~245/mo

Releases R versions

Daily download trend is not available in this view yet.

24230 days

67290 days

2.9K1 year

Compare downloads with other packages →

Also on473 r2u

Dependencies

Declared dependencies

8 external dependencies (excludes base and recommended)

Depends (1)

gaston

Imports (1)

Rcpp

LinkingTo (3)

Rcpp RcppEigen gaston

Suggests (3)

knitr rmarkdown png

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (2)

Maintainer (1)

Hervé Perdry

Maintainer, Author

Authors (2)

Hervé Perdry

Maintainer, Author

Jacqueline Milet

Author

Package Timeline

4 releases. Pick two to compare their code metrics. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
0.7.1Latest
2025-08-26 · current release · diff ↗
R
R 4.5.0 released · 2025-04-11
0.7
2024-06-21 · diff ↗
unarchivedReturned to CRAN
2024-06-21
R
R 4.4.0 released · 2024-04-24
archivedRemoved from CRAN
2024-01-11
issues were not corrected in time
0.6
2023-12-10 · diff ↗
R
R 4.3.0 released · 2023-04-21
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
R
R 4.0.0 released · 2020-04-24
0.3
2020-03-25
R
R 3.6.0 released · 2019-04-26

Package metadata

First published: 2020-03-25
Total releases: 4 / 6 yrs
License: GPL-3 OSI
Download size: 466 KB
Installed size: not tracked yet
With dependencies: not tracked yet

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