R Observatory: Metrics for mikropml version 1.7.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

mikropml

1.7.0

User-Friendly R Package for Supervised Machine Learning Pipelines

0packages depend

7.5Kdownloads / year

–test coverage

6/13checks pass

Overview

About

Maintained by Kelly SovacoolFirst published 2020-11-2315 releasesCRAN page ↗GitHub ↗

An interface to build machine learning models for classification and regression problems. 'mikropml' implements the ML pipeline described by Topçuoğlu et al. (2020) doi:10.1128/mBio.00434-20 with reasonable default options for data preprocessing, hyperparameter tuning, cross-validation, testing, model evaluation, and interpretation steps. See the website https://www.schlosslab.org/mikropml/ for more information, documentation, and examples.

Install

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

install.packages("mikropml", 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("SchlossLab/mikropml")

Development version from SchlossLab/mikropml. 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-mikropml

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-mikropml

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-mikropml

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

Health

CRAN checks

2ERROR5NOTE6OK

Failing flavors

NOTE r-devel-linux-x86_64-debian-clang
NOTE r-devel-linux-x86_64-debian-gcc
NOTE r-devel-linux-x86_64-fedora-clang
NOTE r-devel-linux-x86_64-fedora-gcc
NOTE r-devel-windows-x86_64
ERROR r-oldrel-macos-arm64
ERROR r-oldrel-macos-x86_64

Slowest check: 13.9 min · r-devel-windows-x86_64

Code health

Yes

Tests · ratio 0.73

not tracked

Coverage

97%

Documentation · exports

18

Dependencies · direct

Check history

ERROR2026-03-10
8 OK · 3 NOTE · 0 WARNING · 3 ERROR · 0 FAILURE

Documentation

READMEYes · 511 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 26%
Documented parameters: 100%
Return-value docs: 94%
References docs: 0%

Downloads

7.5K

CRAN downloads in the past year

Rank #6,006 · ~20/day · ~622/mo

Releases R versions

Daily download trend is not available in this view yet.

34830 days

1.3K90 days

7.5K1 year

Compare downloads with other packages →

Also on188 r2u24 autocran2.5K conda_forge

Repository

GitHub ↗ schlosslab/mikropml

65Stars

22Forks

10Open issues

3Open PRs

14Releases

2,569Commits

23Contributors

machine-learningr-packagerstats

2,569 commits · Last activity 2026-08-10 · -1.5% stars, 30d

Stars over time

2025-07-30 · 592026-08-10 · 65

Repository practices

Upstream repositoryBeta

10 development-tooling and community-health practices detected across 7 families in the upstream repository

Checks run against github.com/schlosslab/mikropml on 2026-08-23.

Continuous integration (1)

GitHub Actions

Reproducibility and dev environment (1)

data-raw/

CRAN release process (2)

cran-comments.mdrevdep/

Docs source (1)

README.Rmd

Show all practices

Research and citation (2)

CITATION.cffcodemeta.json

Automation and maintenance (1)

pre-commit

Governance and community (2)

Issue templatesSupport guide

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

Dependencies

Declared dependencies

33 external dependencies (excludes base and recommended)

Depends (1)

R >= 4.1.0

Imports (18)

caret dplyr e1071 glmnet kernlabmethodsMLmetrics randomForest rlangrpartS4Vectors SingleCellExperimentstatsSummarizedExperiment tidyselect TreeSummarizedExperimentutilsxgboost

LinkingTo (0)

none

Suggests (19)

assertthat doFuture forcats foreach furrr future future.apply ggplot2 knitr progress progressr purrr rmarkdown roxygen2 rsample styler testthat tidyr usethis

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (10)

Maintainer (1)

Kelly Sovacool

Author, Maintainer

Authors (6)

Author, Maintainer

Author

Author

Author

Author

Author

Contributors (4)

Courtney Armour

Contributor · added in 1.0.0

Tuomas Borman

Contributor · added in 1.7.0

Nick Lesniak

Contributor

Sarah Lucas

Contributor · added in 1.1.0

Package Timeline

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

R
R 4.6.0 released · 2026-04-24
1.7.0Latest
2025-10-29 · current release · diff ↗
1.6.2
2025-08-22 · diff ↗
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
1.6.1
2023-08-21 · diff ↗
R
R 4.3.0 released · 2023-04-21
1.6.0
2023-04-15 · diff ↗
1.5.0
2023-01-16 · diff ↗
1.4.0
2022-10-16 · diff ↗
1.3.0
2022-05-20 · diff ↗
R
R 4.2.0 released · 2022-04-22
1.2.2
2022-02-03 · diff ↗
1.2.1
2022-01-30 · diff ↗
1.2.0
2021-11-11 · diff ↗
1.1.1
2021-09-14 · diff ↗

Show 6 earlier events

1.1.0
2021-08-10 · diff ↗
R
R 4.1.0 released · 2021-05-18
1.0.0
2021-05-14 · diff ↗
0.0.2
2020-12-03 · diff ↗
0.0.1
2020-11-23
R
R 4.0.0 released · 2020-04-24

Package metadata

First published: 2020-11-23
Total releases: 15 / 6 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 4.1.0
Bundled data: 1.2 MB / 14 files
Download size: 2.1 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("mikropml")

The authors publish a CITATION.cff, so they have said how they want this cited. Run citation() and use what it gives you.

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 mikropml version 1.7.0 [Data set]. HJJB, LLC. Data release v2026-08-23. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-23, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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