R Observatory: Metrics for MMINP version 0.1.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

MMINP

0.1.0

Microbe-Metabolite Interactions-Based Metabolic Profiles Predictor

0packages depend

2.3Kdownloads / year

63.8%test coverage

13/13checks pass

Overview

About

Maintained by Wenli TangFirst published 2022-07-041 releasesCRAN page ↗GitHub ↗

Implements a computational framework to predict microbial community-based metabolic profiles with 'O2PLS' model. It provides procedures of model training and prediction. Paired microbiome and metabolome data are needed for modeling, and the trained model can be applied to predict metabolites of analogous environments using new microbial feature abundances.

Install

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

install.packages("MMINP", 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("YuLab-SMU/MMINP")

Development version from YuLab-SMU/MMINP. 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-mminp

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-MMINP

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-MMINP

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

Health

CRAN checks

13OK

Slowest check: 3.6 min · r-release-macos-x86_64

Code health

Yes

Tests · ratio 0.13

63.8%

Coverage · measured lines

100%

Documentation · exports

4

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
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 23 wordsVignettesYes · dynamicpkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 100%
References docs: 29%

Downloads

2.3K

CRAN downloads in the past year

Rank #15,914 · ~6/day · ~192/mo

Releases R versions

Daily download trend is not available in this view yet.

17030 days

66390 days

2.3K1 year

Compare downloads with other packages →

Also on146 r2u25 autocran

Repository

GitHub ↗ yulab-smu/mminp

16Stars

4Forks

0Open issues

0Open PRs

0Releases

34Commits

2Contributors

microbesmetabolitesmetabolite-prediction

34 commits · Last activity 2023-03-17 · 0% stars, 30d

Stars over time

2025-04-07 · 152026-07-07 · 16

Repository practices

Upstream repositoryBeta

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

Checks run against github.com/yulab-smu/mminp on 2026-08-16.

Reproducibility and dev environment (1)

Makefile

Lint, format, editor (1)

RStudio project

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

Dependencies

Declared dependencies

6 external dependencies (excludes base and recommended)

Depends (1)

R >= 4.1.0

Imports (4)

magrittr OmicsPLSutilsstats

LinkingTo (0)

none

Suggests (4)

rmarkdown knitr prettydoc testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (2)

Maintainer (1)

Wenli Tang

Author, Maintainer

Authors (2)

Wenli Tang

Author, Maintainer

Guangchuang Yu

Author, Thesis advisor

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: 2022-07-04
Total releases: 1 / 4 yrs
License: GPL (>= 3.0)
Minimum R: ≥ 4.1.0
Bundled data: 3.1 MB / 5 files
Download size: 3.4 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("MMINP")

Format

Tang, W., & Yu, G. (2022). MMINP: Microbe-Metabolite Interactions-Based Metabolic Profiles Predictor (Version 0.1.0) [Computer software]. https://doi.org/10.32614/CRAN.package.MMINP

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 MMINP version 0.1.0 [Data set]. HJJB, LLC. Data release v2026-08-22. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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