R Observatory: Metrics for rMVP version 1.4.6

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

rMVP

1.4.6

Memory-Efficient, Visualize-Enhanced, Parallel-Accelerated GWAS Tool

0packages depend

5.8Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Xiaolei LiuFirst published 2026-03-1417 releasesCRAN page ↗GitHub ↗

A memory-efficient, visualize-enhanced, parallel-accelerated Genome-Wide Association Study (GWAS) tool. It can (1) effectively process large data, (2) rapidly evaluate population structure, (3) efficiently estimate variance components several algorithms, (4) implement parallel-accelerated association tests of markers three methods, (5) globally efficient design on GWAS process computing, (6) enhance visualization of related information. 'rMVP' contains three models GLM (Alkes Price (2006) DOI:10.1038/ng1847), MLM (Jianming Yu (2006) DOI:10.1038/ng1702) and FarmCPU (Xiaolei Liu (2016) doi:10.1371/journal.pgen.1005767); variance components estimation methods EMMAX (Hyunmin Kang (2008) DOI:10.1534/genetics.107.080101;), FaSTLMM (method: Christoph Lippert (2011) DOI:10.1038/nmeth.1681, R implementation from 'GAPIT2': You Tang and Xiaolei Liu (2016) DOI:10.1371/journal.pone.0107684 and 'SUPER': Qishan Wang and Feng Tian (2014) DOI:10.1371/journal.pone.0107684), and HE regression (Xiang Zhou (2017) DOI:10.1214/17-AOAS1052).

Install

R (CRAN)pak (dev)Ubuntu (r2u)Fedora (COPR)openSUSE (OBS)

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

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

if (!requireNamespace("pak", quietly = TRUE))
  install.packages("pak", repos = "https://cloud.r-project.org/")
pak::pak("xiaolei-lab/rMVP")

Development version from xiaolei-lab/rMVP. Installs pak first if it is not already available.

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-rmvp

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-rMVP

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

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

# add the autoCRAN OBS repo (Tumbleweed) if it is missing, then install
zypper -q lr | grep -qi autoCRAN \
  || sudo zypper addrepo https://download.opensuse.org/repositories/devel:/languages:/R:/autoCRAN/openSUSE_Tumbleweed/devel:languages:R:autoCRAN.repo
sudo zypper install -y R-rMVP

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed).

Health

CRAN checks

13OK

Slowest check: 5.2 min · r-devel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

8

Dependencies · direct

Check history

OK2026-08-05
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-08-01
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-06-09
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-08
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-04-25
12 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Show 5 earlier snapshots

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
NOTE2026-04-10
12 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-04-09
11 OK · 2 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
NOTE2026-03-15
4 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesNopkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 27%
Documented parameters: 99%
Return-value docs: 94%
References docs: 0%

Downloads

5.8K

CRAN downloads in the past year

Rank #3,544 · ~16/day · ~484/mo

Releases R versions

Daily download trend is not available in this view yet.

63930 days

2.8K90 days

5.8K1 year

Compare downloads with other packages →

Also on411 r2u16 autocran8.6K conda_forge67 c2d4u

Repository

GitHub ↗ xiaolei-lab/rmvp

336Stars

80Forks

46Open issues

3Open PRs

4Releases

953Commits

8Contributors

License Apache-2.0 · 953 commits · Last activity 2026-05-27 · +1.2% stars, 30d

Stars over time

2025-07-31 · 3042026-08-02 · 336

Repository practices

Upstream repositoryBeta

2 development-tooling and community-health practices detected across 2 families in the upstream repository

Checks run against github.com/xiaolei-lab/rmvp on 2026-08-09.

Continuous integration (1)

GitHub Actions

Reproducibility and dev environment (1)

Dockerfile

How this is detected·Detection ruleset v1 (2026-07-18)

Dependencies

Declared dependencies

11 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.3

Imports (8)

utilsstatsmethodsgraphicsgrDevicesMASSbigmemory RhpcBLASctl

LinkingTo (6)

Rcpp RcppArmadillo RcppEigen RcppProgress BH bigmemory

Suggests (3)

knitr testthat rmarkdown

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (15)

Maintainer (1)

Xiaolei Liu

Maintainer, Author, Copyright holder

Authors (11)

Xiaolei Liu

Maintainer, Author, Copyright holder

Author

Author

Author

Author

Author

Author

Author

Author

Author

Author

Contributors (4)

Contributor

Contributor

Contributor

Contributor

Copyright holders (1)

Xiaolei Liu

Maintainer, Author, Copyright holder

Package Timeline

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

R
R 4.6.0 released · 2026-04-24
1.4.6Latest
2026-03-14 · current release · diff ↗
unarchivedReturned to CRAN
2026-03-14
archivedRemoved from CRAN
2026-02-13
issues were not corrected in time
1.4.5
2025-07-23 · diff ↗
R
R 4.5.0 released · 2025-04-11
1.4.0
2025-01-22 · diff ↗
1.3.5
2025-01-10 · diff ↗
1.3.0
2024-12-17 · diff ↗
1.1.1
2024-08-31 · diff ↗
R
R 4.4.0 released · 2024-04-24
1.0.8
2023-11-27 · diff ↗
1.0.7
2023-09-01 · 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

Show 14 earlier events

1.0.6
2021-04-18 · diff ↗
1.0.5
2021-03-02 · diff ↗
1.0.4
2020-09-01 · diff ↗
1.0.3
2020-07-17 · diff ↗
1.0.0
2020-05-07 · diff ↗
unarchivedReturned to CRAN
2020-05-07
R
R 4.0.0 released · 2020-04-24
archivedRemoved from CRAN
2020-04-03
installation problems were not corrected in time required OpenMP Simple fix needed to issues reported by LTO
0.99.18
2020-03-19 · diff ↗
unarchivedReturned to CRAN
2020-03-19
0.99.17
2019-10-18 · diff ↗
0.99.16
2019-09-24 · diff ↗
0.99.15
2019-08-30
R
R 3.6.0 released · 2019-04-26

Package metadata

First published: 2026-03-14
Total releases: 17 / 1 yrs
License: Apache License 2.0 OSI
Minimum R: ≥ 3.3
Bundled data: 777 KB / 1 file
Download size: not tracked yet
Installed size: not tracked yet
With dependencies: not tracked yet

Appears in task views

Agricultural Science

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("rMVP")

Format

Liu, X., Kang, H., Li, X., Tang, Z., Tian, F., Wang, Q., Xu, J., Yin, D., Yin, L., Yuan, X., Zhang, H., Zhang, Z., Zhao, S., Zhou, X., & Zhu, M. (2026). rMVP: Memory-Efficient, Visualize-Enhanced, Parallel-Accelerated GWAS Tool (Version 1.4.6) [Computer software]. https://doi.org/10.32614/CRAN.package.rMVP

This is what citation() produces when a package has no citation file of its own. If it prints something else, use that.

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 rMVP version 1.4.6 [Data set]. HJJB, LLC. Data release v2026-08-15. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-15, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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