MUVR2

0.1.0

Multivariate Methods with Unbiased Variable Selection

0packages depend

2.6Kdownloads / year

35.9%test coverage

13/13checks pass

Overview

About

Maintained by Yingxiao YanFirst published 2024-09-161 releasesCRAN page ↗GitHub ↗

Predictive multivariate modelling for metabolomics. Types: Classification and regression. Methods: Partial Least Squares, Random Forest ans Elastic Net Data structures: Paired and unpaired Validation: repeated double cross-validation (Westerhuis et al. (2008)doi:10.1007/s11306-007-0099-6, Filzmoser et al. (2009)doi:10.1002/cem.1225) Variable selection: Performed internally, through tuning in the inner cross-validation loop.

Install

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

install.packages("MUVR2", 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("MetaboComp/MUVR2")

Development version from MetaboComp/MUVR2. 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-muvr2

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-MUVR2

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-MUVR2

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

Health

CRAN checks

13OK

Slowest check: 8.6 min · r-devel-linux-x86_64-fedora-clang

Code health

Yes

Tests · ratio 0.05

35.9%

Coverage · measured lines

100%

Documentation · exports

Dependencies · direct

Check history

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
OK2026-05-02
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-04-25
11 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 315 wordsVignettesNopkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 42%
Documented parameters: 100%
Return-value docs: 100%
References docs: 0%

Downloads

2.6K

CRAN downloads in the past year

Rank #12,624 · ~7/day · ~213/mo

Releases R versions

Daily download trend is not available in this view yet.

24730 days

84890 days

2.6K1 year

Compare downloads with other packages →

Also on177 r2u29 autocran

Repository

GitHub ↗ metabocomp/muvr2

7Stars

1Forks

0Open issues

0Open PRs

0Releases

41Commits

2Contributors

41 commits · Last activity 2024-09-18 · 0% stars, 30d

Stars over time

2025-03-13 · 22026-07-07 · 7

Repository practices

Upstream repositoryBeta

1 development-tooling and community-health practice detected across 1 family in the upstream repository

Checks run against github.com/metabocomp/muvr2 on 2026-07-19.

Lint, format, editor (1)

RStudio project

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

Dependencies

Declared dependencies

11 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.5.0

Imports (16)

statsgraphicsrandomForest ranger pROC doParallel foreach caret glmnetsplinesdplyr psych magrittrmgcvgrDevicesparallel

LinkingTo (0)

none

Suggests (1)

testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Code Composition

R 12,755 (88%)Rd 1,695 (12%)

Code characteristics

Cyclomatic complexity: 12.0 median / 150 max
Test cases: 45 / 0.05 per code line

Test coverage

Line coverage

36%

Expression

37.2%

Tests / Examples

35.9% / 10% ex

Functions

46 33 exported

Complexity

25.3 avg / 150 max

Call network

46 nodes / 52 edges

Call graph

Open call graph →

Loading call graph…

Lowest coverage

46 functions

Function	Cyclo	Coverage
plotPerm exp	49	0%
rdCV exp	73	0%
plotStability exp	20	0%
plotVAL exp	15	1%
plotVIRank exp	19	1%
plotMV exp	18	1%

Datasets

Bundled datasets · 8

Name	Class	Rows × Cols	Also ships in
IDR	vector	–	–
IDR2	vector	–	–
XRVIP2	data.frame	58 × 1,147	–
Xotu	data.frame	29 × 1,678	–
YR	vector	–	–
YR2	vector	–	–
Yotu	factor	–	–
crispEM	data.frame	21 × 1,508	–

People & History

People (2)

Maintainer (1)

Yingxiao Yan

Author, Maintainer

Authors (2)

Yingxiao Yan

Author, Maintainer

Carl Brunius

Author

Package Timeline

1 release. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
0.1.0Latest
2026-03-10 · current release
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2024-09-16
Total releases: 1 / 2 yrs
License: GPL-3 OSI
Minimum R: ≥ 3.5.0
Bundled data: 834 KB / 4 files
Download size: 3.9 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Report a problem with this page →